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Changeset 125:49f3d3878413 (2024-10-05)

Previous changeset 124:137e08517410 (2024-10-04) Next changeset 126:fd0fc6fdc7c5 (2024-10-06)

Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 5ea1f9c1eef1de76232e69aa6d34cda77d90d566

modified:
__pycache__/jbrowse2.cpython-312.pyc
jbrowse2.xml

diff -r 137e08517410 -r 49f3d3878413 __pycache__/jbrowse2.cpython-312.pyc

Binary file __pycache__/jbrowse2.cpython-312.pyc has changed

diff -r 137e08517410 -r 49f3d3878413 foo
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/foo Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,7 @@
+import xml.etree.ElementTree as ET
+import string
+removeMe = string.punctuation.replace('.', ' ').replace('/', '').replace('-', '')
+nopunct = str.maketrans(dict.fromkeys(removeMe))
+xmlstr = '<foo><bar key="!::{}////foo \\~~~~ bar">text</bar></foo>'
+root = ET.fromstring(xmlstr)
+print(root[0].attrib['key'],'=',root[0].attrib['key'].translate(nopunct))

diff -r 137e08517410 -r 49f3d3878413 jbrowse2.xml
--- a/jbrowse2.xml Fri Oct 04 23:32:20 2024 +0000
+++ b/jbrowse2.xml Sat Oct 05 23:58:05 2024 +0000

[

@@ -1128,6 +1128,45 @@
                     </has_archive_member>
                 </assert_contents>
             </output>
+        </test>
+        <test>
+            <repeat name="assemblies">
+                <conditional name="reference_genome">
+                    <param name="genome_type_select" value="history"/>
+                    <param name="genome" value="merlin.fa"/>
+                    <param name="genome.ext" value="fasta"/>
+                    <param name="genome.name" value="Merlin"/>
+                </conditional>
+                <repeat name="track_groups">
+                    <param name="category" value="Default"/>
+                    <repeat name="data_tracks">
+                        <conditional name="data_format">
+                            <param name="data_format_select" value="bigwig"/>
+                            <conditional name="useuri">
+                                <param name="annotation" value="bw/m:e.r.l .i-n.bw"/>
+                                <param name="insource" value="history"/>
+                            </conditional>
+                        </conditional>
+                    </repeat>
+                </repeat>
+            </repeat>
+            <section name="jbgen">
+                <param name="zipOut" value="true"/>
+            </section>
+            <output name="output">
+                <assert_contents>
+                    <has_archive_member path="config.json">
+                        <has_text text="QuantitativeTrack"/>
+                        <has_text text="trackId"/>
+                        <has_text text="me.r.l.i-n.bw_0"/>
+                        <has_text text="name"/>
+                        <has_text text="Default"/>
+                        <has_text text="name"/>
+                        <has_text text="assemblyName"/>
+                        <has_text text="merlin.fa"/>
+                    </has_archive_member>
+                </assert_contents>
+            </output>
         </test>
     </tests>
     <help><![CDATA[

diff -r 137e08517410 -r 49f3d3878413 test-data/bw/m:e.r.l .i-n.bw

Binary file test-data/bw/m:e.r.l .i-n.bw has changed

diff -r 137e08517410 -r 49f3d3878413 x/bedscoreplugin.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/bedscoreplugin.js Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,26 @@
+// colour bed regions according to score - must have columns and score as part of the adapter setup
+;(function () {
+  class Plugin {
+    name = 'BedScorePlugin';
+    version = '1.0';
+
+    install(pluginManager) {
+      pluginManager.jexl.addFunction('customColor', feature => {
+        if (Number(feature.get('score')) > 0) {
+          return 'red';
+        } else {
+          return 'blue';
+        }
+      })
+    }
+
+    configure(pluginManager) {}
+  }
+
+  // the plugin will be included in both the main thread and web worker, so
+  // install plugin to either window or self (webworker global scope)
+  ;(typeof self !== 'undefined' ? self : window).JBrowsePluginBedScorePlugin =
+    {
+      default: Plugin,
+    }
+})()

diff -r 137e08517410 -r 49f3d3878413 x/build_env_setup.sh
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/build_env_setup.sh Sat Oct 05 23:58:05 2024 +0000

[

b'@@ -0,0 +1,396 @@\n+export CONDA_BUILD="1"\n+export PYTHONNOUSERSITE="1"\n+export CONDA_DEFAULT_ENV="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881"\n+export ARCH="64"\n+export PREFIX="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881"\n+export BUILD_PREFIX="/opt/conda/conda-bld/jbrowse2_1726856947541/_build_env"\n+export SYS_PREFIX="/opt/conda"\n+export SYS_PYTHON="/opt/conda/bin/python"\n+export SUBDIR="linux-64"\n+export build_platform="linux-64"\n+export SRC_DIR="/opt/conda/conda-bld/jbrowse2_1726856947541/work"\n+export ROOT="/opt/conda"\n+export CONDA_PY="312"\n+export PY3K="1"\n+export PY_VER="3.12"\n+export STDLIB_DIR="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881/lib/python3.12"\n+export SP_DIR="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881/lib/python3.12/site-packages"\n+export NPY_VER="1.26"\n+export CONDA_NPY="126"\n+export NPY_DISTUTILS_APPEND_FLAGS="1"\n+export PERL_VER="5.32"\n+export CONDA_PERL="5.32"\n+export LUA_VER="5"\n+export CONDA_LUA="5"\n+export R_VER="4.3.*"\n+export CONDA_R="4.3.*"\n+export PKG_NAME="jbrowse2"\n+export PKG_VERSION="2.15.4"\n+export PKG_BUILDNUM="0"\n+export PKG_BUILD_STRING="placeholder"\n+export PKG_HASH="1234567"\n+export RECIPE_DIR="/opt/recipe"\n+export CPU_COUNT="2"\n+export LANG="C.UTF-8"\n+export SHLIB_EXT=".so"\n+export PATH="/opt/conda/conda-bld/jbrowse2_1726856947541/_build_env/bin:/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881/bin:/opt/conda/bin:/opt/conda/condabin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/home/conda/bin"\n+export HOME="/home/conda"\n+export PKG_CONFIG_PATH="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881/lib/pkgconfig"\n+export CMAKE_GENERATOR="Unix Makefiles"\n+export LD_RUN_PATH="/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881/lib"\n+export BUILD="x86_64-conda_cos6-linux-gnu"\n+export zip_keys="[[\'c_compiler_version\', \'cxx_compiler_version\', \'fortran_compiler_version\'], [\'arrow_cpp\', \'libarrow\', \'libarrow_all\'], [\'python\', \'numpy\', \'python_impl\'], [\'c_stdlib_version\', \'cdt_name\']]"\n+export pin_run_as_build="OrderedDict([(\'python\', {\'min_pin\': \'x.x\', \'max_pin\': \'x.x\'}), (\'r-base\', {\'max_pin\': \'x.x\', \'min_pin\': \'x.x\'}), (\'flann\', {\'max_pin\': \'x.x.x\'}), (\'graphviz\', {\'max_pin\': \'x\'}), (\'libsvm\', {\'max_pin\': \'x\'}), (\'netcdf-cxx4\', {\'max_pin\': \'x.x\'}), (\'occt\', {\'max_pin\': \'x.x\'}), (\'poppler\', {\'max_pin\': \'x.x\'}), (\'vlfeat\', {\'max_pin\': \'x.x.x\'})])"\n+export extend_keys="{\'ignore_version\', \'pin_run_as_build\', \'extend_keys\', \'ignore_build_only_deps\'}"\n+export ignore_build_only_deps="{\'python\', \'numpy\'}"\n+export libyarp="3.9.0"\n+export libintervalxt="3"\n+export tk="8.6"\n+export libmatio="1.5.26"\n+export qt="5.15"\n+export coin_or_cgl="0.60"\n+export coincbc="2.10"\n+export pixman="0"\n+export libhugetlbfs="2"\n+export libopencv="4.9.0"\n+export ccr="1.3"\n+export superlu_dist="8"\n+export libsoup="3"\n+export pyqtwebengine="5.15"\n+export hdf4="4.2.15"\n+export gst_plugins_base="1.22"\n+export eclib="20231211"\n+export google_cloud_cpp_common="0.25.0"\n+export dcap="2.47"\n+export slepc4py="3.21"\n+export scotch="7.0.4"\n+export snappy="1.2"\n+export suitesparse="5"\n+export libblitz="1.0.2"\n+export libabseil_static="20220623.0"\n+export libflatsurf="3"\n+export pulseaudio="17.0"\n+export libcblas="3.9 *netlib"\n+export libgoogle_cloud_dlp_devel="2.24"\n+export rocksdb="9.1"\n+export _libgcc_mutex="0.1 conda_forge"\n+export gnuradio_core="3.10.10"\n+export librdkafka="2.4"\n+export libdap4="3.20.6"\n+export aws_c_auth="0.7.22"\n+export channel_targets="bioconda main"\n+export libhwloc="2.10.0"\n+export pyqt="5.15"\n+export cpu_optimization_target="nocona"\n+export assimp="5.3.1"\n+export mpfr="4"\n+export pcre2="10.43"\n+export gsl="2.7"\n+expor'..b'h="2.1"\n+export pulseaudio_client="17.0"\n+export aws_crt_cpp="0.26.9"\n+export pango="1.50"\n+export alsa_lib="1.2"\n+export bzip2="1"\n+export tbb="2021"\n+export root_base="6.28.10"\n+export libnetcdf="4.9.2"\n+export cran_mirror="https://cran.r-project.org"\n+export wxwidgets="3.2"\n+export orc="2.0.1"\n+export singular="4.3.2.p8"\n+export libspatialindex="1.9.3"\n+export p11_kit="0.24"\n+export cuda_compiler="None"\n+export log4cxx="1.2.0"\n+export cuda_compiler_version_min="11.8"\n+export msgpack_cxx="6"\n+export libxml2="2"\n+export fftw="3"\n+export libuuid="2"\n+export wcslib="8"\n+export VERBOSE_AT="V=1"\n+export cudnn="8"\n+export mkl="2023"\n+export ldas_tools_framecpp="2.9"\n+export libgoogle_cloud_aiplatform_devel="2.24"\n+export pyqtchart="5.15"\n+export qtkeychain="0.14"\n+export blas_impl="blis"\n+export nss="3"\n+export gdk_pixbuf="2"\n+export gf2x="1.3"\n+export tensorflow="2.15"\n+export liblapacke="3.9 *netlib"\n+export libgoogle_cloud_spanner_devel="2.24"\n+export pcl="1.14.0"\n+export krb5="1.21"\n+export libsvm="332"\n+export libexactreal="4"\n+export cgo_compiler="go-cgo"\n+export petsc4py="3.21"\n+export poppler="24.04"\n+export aws_c_event_stream="0.4.2"\n+export vtk="9.2.6"\n+export libkml="1.3"\n+export libssh="0.10"\n+export flann="1.9.2"\n+export gfal2="2.22"\n+export cfitsio="4.3.0"\n+export s2n="1.4.15"\n+export rdma_core="51"\n+export json_c="0.17"\n+export zfp="1.0"\n+export libgoogle_cloud_devel="2.24"\n+export giflib="5.2"\n+export soapysdr="0.8"\n+export libblas="3.9 *netlib"\n+export openjpeg="2"\n+export mkl_devel="2023"\n+export imath="3.1.11"\n+export glib="2"\n+export libboost_devel="1.82"\n+export target_gobin="${PREFIX}/bin/"\n+export libsentencepiece="0.2.0"\n+export pugixml="1.14"\n+export antic="0.2"\n+export libgoogle_cloud_bigtable_devel="2.24"\n+export sdl2="2"\n+export ipopt="3.14.16"\n+export mumps_mpi="5.7.1"\n+export qt_main="5.15"\n+export c_ares="1"\n+export volk="3.1"\n+export libgoogle_cloud_pubsub_devel="2.24"\n+export aws_c_cal="0.6.14"\n+export ffmpeg="6"\n+export libunwind="1.6"\n+export gmp="6"\n+export sdl2_ttf="2"\n+export capnproto="1.0.2"\n+export isl="0.26"\n+export libgoogle_cloud_iam_devel="2.24"\n+export libaec="1"\n+export tbb_devel="2021"\n+export xerces_c="3.2"\n+export liblapack="3.9 *netlib"\n+export cairo="1"\n+export libtiff="4.6"\n+export aws_c_io="0.14.8"\n+export dav1d="1.2.1"\n+export lerc="4"\n+export target_goarch="amd64"\n+export proj="9.3.1"\n+export arb="2.23"\n+export aws_c_mqtt="0.10.4"\n+export libgoogle_cloud_speech_devel="2.24"\n+export expat="2"\n+export bullet_cpp="3.25"\n+export srm_ifce="1.24.6"\n+export libgoogle_cloud_storage_devel="2.24"\n+export libavif="1"\n+export postgresql="16"\n+export glpk="5.0"\n+export graphviz="9"\n+export lmdb="0.9.29"\n+export flatbuffers="24.3.25"\n+export libxsmm="1"\n+export freetype="2"\n+export console_bridge="1.0"\n+export libgoogle_cloud="2.24"\n+export aom="3.8"\n+export rust_compiler="rust"\n+export libgoogle_cloud_all_devel="2.24"\n+export libdeflate="1.20"\n+export nccl="2"\n+export libgoogle_cloud_discoveryengine_devel="2.24"\n+export attr="2.5"\n+export gsoap="2.8.123"\n+export starlink_ast="9.2.7"\n+export fortran_compiler="gfortran"\n+export r_base="4.3.*"\n+export libwebp="1"\n+export libsndfile="1.2"\n+export poco="1.13.3"\n+export libosqp="0.6.3"\n+export arrow_cpp="15"\n+export libarrow="15"\n+export libarrow_all="15"\n+export python_impl="cpython"\n+export c_stdlib_version="2.17"\n+export cdt_name="cos6"\n+export c_compiler_version="12"\n+export cxx_compiler_version="12"\n+export fortran_compiler_version="12"\n+export CONDA_BUILD_STATE="BUILD"\n+export PIP_NO_BUILD_ISOLATION="False"\n+export PIP_NO_DEPENDENCIES="True"\n+export PIP_IGNORE_INSTALLED="True"\n+export PIP_CACHE_DIR="/opt/conda/conda-bld/jbrowse2_1726856947541/pip_cache"\n+export PIP_NO_INDEX="True"\n+eval "$(\'/opt/conda/bin/python\' -m conda shell.bash hook)"\n+conda activate "/home/ross/miniconda3/envs/mulled-v1-ead19212d339c2197ed3232dcd8366627d23ccb1cf4fb8ae3186545effdca881"\n+conda activate --stack "/opt/conda/conda-bld/jbrowse2_1726856947541/_build_env"\n'

diff -r 137e08517410 -r 49f3d3878413 x/conda_build.sh
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/conda_build.sh Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,20 @@
+if [ -z ${CONDA_BUILD+x} ]; then
+ source /opt/conda/conda-bld/jbrowse2_1726856947541/work/build_env_setup.sh
+fi
+#!/bin/bash
+
+# Place the jbrowse2 www content in the conda package
+mkdir -p $PREFIX/opt/jbrowse2/
+cp -r * $PREFIX/opt/jbrowse2/
+
+# Set an env var for people willing to find the jbrowse2 www content
+mkdir -p $PREFIX/etc/conda/activate.d/
+echo "export JBROWSE2_SOURCE_DIR=$PREFIX/opt/jbrowse2" > $PREFIX/etc/conda/activate.d/jbrowse2-sourcedir.sh
+chmod a+x $PREFIX/etc/conda/activate.d/jbrowse2-sourcedir.sh
+
+mkdir -p $PREFIX/etc/conda/deactivate.d/
+echo "unset JBROWSE2_SOURCE_DIR" > $PREFIX/etc/conda/deactivate.d/jbrowse2-sourcedir.sh
+chmod a+x $PREFIX/etc/conda/deactivate.d/jbrowse2-sourcedir.sh
+
+# Install the CLI
+npm install --prefix=${PREFIX} -g @jbrowse/cli@${PKG_VERSION}

diff -r 137e08517410 -r 49f3d3878413 x/config.json
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/config.json Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,132 @@
+{
+  "configuration": {
+    "disableAnalytics": false,
+    "theme": {
+      "palette": {
+        "primary": {
+          "main": "#0d233f"
+        },
+        "secondary": {
+          "main": "#721e63"
+        },
+        "tertiary": {
+          "main": "#135560"
+        },
+        "quaternary": {
+          "main": "#ffb11d"
+        }
+      },
+      "typography": {
+        "fontSize": 10
+      }
+    }
+  },
+  "defaultSession": {
+    "name": "New JBrowse2 session",
+    "views": [
+      {
+        "type": "LinearGenomeView",
+        "offsetPx": 0,
+        "bpPerPx": 50,
+        "minimized": false,
+        "tracks": [
+          {
+            "type": "QuantitativeTrack",
+            "configuration": "me.r.l.i-n.bw_0",
+            "displays": [
+              {
+                "type": "LinearWiggleDisplay",
+                "displayId": "me.r.l.i-n.bw_0-LinearWiggleDisplay",
+                "color": "#135560",
+                "autoscale": "globalsd",
+                "resolution": 1,
+                "summaryScoreMode": "whiskers",
+                "filled": false,
+                "scaleType": "linear",
+                "displayCrossHatches": false,
+                "configuration": "me.r.l.i-n.bw_0-LinearWiggleDisplay"
+              }
+            ]
+          }
+        ],
+        "displayedRegions": [
+          {
+            "reversed": false,
+            "assemblyName": "merlin.fa",
+            "refName": "Merlin",
+            "start": 0,
+            "end": 172788
+          }
+        ]
+      }
+    ]
+  },
+  "tracks": [
+    {
+      "type": "QuantitativeTrack",
+      "trackId": "me.r.l.i-n.bw_0",
+      "name": "me.r.l.i-n.bw_0",
+      "category": [
+        "Default"
+      ],
+      "assemblyNames": [
+        "merlin.fa"
+      ],
+      "adapter": {
+        "type": "BigWigAdapter",
+        "bigWigLocation": {
+          "uri": "me.r.l.i-n.bw_0"
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearWiggleDisplay",
+          "displayId": "me.r.l.i-n.bw_0-LinearWiggleDisplay"
+        }
+      ],
+      "style": {
+        "type": "LinearWiggleDisplay",
+        "displayId": "me.r.l.i-n.bw_0-LinearWiggleDisplay",
+        "color": "#135560",
+        "autoscale": "globalsd",
+        "resolution": 1,
+        "summaryScoreMode": "whiskers",
+        "filled": false,
+        "scaleType": "linear",
+        "displayCrossHatches": false,
+        "configuration": "me.r.l.i-n.bw_0-LinearWiggleDisplay"
+      }
+    }
+  ],
+  "assemblies": [
+    {
+      "name": "merlin.fa",
+      "sequence": {
+        "type": "ReferenceSequenceTrack",
+        "trackId": "merlin.fa",
+        "adapter": {
+          "type": "BgzipFastaAdapter",
+          "fastaLocation": {
+            "uri": "merlin.fa.fa.gz"
+          },
+          "faiLocation": {
+            "uri": "merlin.fa.fa.gz.fai"
+          },
+          "gziLocation": {
+            "uri": "merlin.fa.fa.gz.gzi"
+          }
+        }
+      },
+      "displays": [
+        {
+          "type": "LinearReferenceSequenceDisplay",
+          "displayId": "merlin.fa-LinearReferenceSequenceDisplay"
+        },
+        {
+          "type": "LinearGCContentDisplay",
+          "displayId": "merlin.fa-LinearGCContentDisplay"
+        }
+      ]
+    }
+  ]
+}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/galaxy.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/galaxy.xml Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,90 @@
+<?xml version="1.0"?>
+<root>
+    <metadata>
+        <general>
+            <defaultLocation></defaultLocation>
+            <zipOut>true</zipOut>
+            <bpPerPx>50</bpPerPx>
+            <analytics>false</analytics>
+            <primary_color>#0d233f</primary_color>
+            <secondary_color>#721e63</secondary_color>
+            <tertiary_color>#135560</tertiary_color>
+            <quaternary_color>#ffb11d</quaternary_color>
+            <font_size>10</font_size>
+            <session_name>New JBrowse2 session</session_name>
+        </general>
+        <galaxyUrl>http://localhost:8080</galaxyUrl>
+    </metadata>
+    <assembly>
+        <metadata>
+            <genomes>
+                  <genome path="/tmp/tmp1o397r1c/files/0/8/7/dataset_087ee618-c1bb-44f5-8154-b99f36c6c9d0.dat" label="merlin.fa" useuri="no">
+                    <metadata>
+
+                      <dataset id="8209a7ce5c994d06"
+                          hid="1"
+                          size="171.6 KB"
+                          edam_format="format_1929"
+                          file_ext="fasta"
+                          dname = "merlin.fa"
+                          />
+                      <history
+                          user_email="planemo@galaxyproject.org"
+                          user_id="1"
+                          display_name="Tool Test History for jbrowse2/2.15.4+galaxy4-0"/>
+                          id="8209a7ce5c994d06"
+                          />
+                      <metadata
+                              dbkey="?"
+                              data_lines="2881"
+                              sequences="1"
+                          />
+                      <tool
+                          tool_id="upload1"
+                          tool_version="1.1.7"
+                          />
+                    </metadata>
+                  </genome>
+            </genomes>
+    </metadata>
+    <tracks>
+                    <track cat="Default" format="bigwig" visibility="default_on">
+                    <files>
+                              <trackFile path="/tmp/tmp1o397r1c/files/6/d/0/dataset_6d084510-481a-476e-b695-007342a696de.dat" ext="bigwig" label="m:e.r.l .i-n.bw" useuri="no">
+                                <metadata>
+                                  <dataset id="5bf1d76d98c8e935" hid="2"
+                                      size="81.6 KB"
+                                      edam_format="format_3006"
+                                      file_ext="bigwig" />
+                                  <history id="8209a7ce5c994d06"
+                                      user_email="planemo@galaxyproject.org"
+                                      user_id="1"
+                                      display_name="Tool Test History for jbrowse2/2.15.4+galaxy4-0"/>
+                                  <metadata
+                                        dbkey="?"
+                                      />
+                                  <tool
+                                      tool_id="upload1"
+                                      tool_version="1.1.7"
+                                      />
+                                </metadata>
+                              </trackFile>
+                    </files>
+                      <options>
+                        <style>
+                                <type>LinearWiggleDisplay</type>
+                                <color>#135560</color>
+                                <autoscale>globalsd</autoscale>
+                                <resolution>1</resolution>
+                                <summaryScoreMode>whiskers</summaryScoreMode>
+                                <filled>true</filled>
+                                <scaleType>linear</scaleType>
+                                <displayCrossHatches>true</displayCrossHatches>
+                                <minScore></minScore>
+                                <maxScore></maxScore>
+                        </style>
+                        </options>
+                  </track>
+    </tracks>
+    </assembly>
+</root>

diff -r 137e08517410 -r 49f3d3878413 x/index.html
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/index.html Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,1 @@
+<!doctype html><html lang="en"><head><meta charset="utf-8"/><link rel="shortcut icon" href="./favicon.ico"/><meta name="viewport" content="width=device-width,initial-scale=1"/><meta name="theme-color" content="#000000"/><meta name="description" content="A fast and flexible genome browser"/><link rel="manifest" href="./manifest.json"/><title>JBrowse</title><script defer="defer" src="static/js/main.1532dd54.js"></script></head><body style="overscroll-behavior:none"><noscript>You need to enable JavaScript to run this app.</noscript><div id="root"></div></body></html>
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/jb2_webserver.py
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/jb2_webserver.py Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,187 @@
+#!/usr/bin/env python3
+# spec: simplest python web server with range support and multithreading that takes root path,
+# port and bind address as command line arguments; by default uses the current dir as webroot,
+# port 8000 and bind address of 0.0.0.0
+# borrowed from https://github.com/danvk/RangeHTTPServer
+# and reborrowed from https://gist.github.com/glowinthedark/b99900abe935e4ab4857314d647a9068
+#
+# The Apache 2.0 license copy in this repository is distributed with this code in accordance with that licence.
+# https://www.apache.org/licenses/LICENSE-2.0.txt
+# This part is not MIT licenced like the other components.
+
+# APPENDIX: How to apply the Apache License to your work.
+
+# To apply the Apache License to your work, attach the following
+# boilerplate notice, with the fields enclosed by brackets "[]"
+# replaced with your own identifying information. (Don't include
+# the brackets!)  The text should be enclosed in the appropriate
+# comment syntax for the file format. We also recommend that a
+# file or class name and description of purpose be included on the
+# same "printed page" as the copyright notice for easier
+# identification within third-party archives.
+
+# Licensed under the Apache License, Version 2.0 (the "License");
+# you may not use this file except in compliance with the License.
+# You may obtain a copy of the License at
+
+# http://www.apache.org/licenses/LICENSE-2.0
+
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.
+
+
+import argparse
+import functools
+import os
+import re
+import socketserver
+import webbrowser
+from http.server import SimpleHTTPRequestHandler
+
+
+DEFAULT_PORT = 8081
+
+
+def copy_byte_range(infile, outfile, start=None, stop=None, bufsize=16 * 1024):
+    """Like shutil.copyfileobj, but only copy a range of the streams.
+
+    Both start and stop are inclusive.
+    """
+    if start is not None:
+        infile.seek(start)
+    while 1:
+        to_read = min(bufsize, stop + 1 - infile.tell() if stop else bufsize)
+        buf = infile.read(to_read)
+        if not buf:
+            break
+        outfile.write(buf)
+
+
+BYTE_RANGE_RE = re.compile(r"bytes=(\d+)-(\d+)?$")
+
+
+def parse_byte_range(byte_range):
+    """Returns the two numbers in 'bytes=123-456' or throws ValueError.
+
+    The last number or both numbers may be None.
+    """
+    if byte_range.strip() == "":
+        return None, None
+
+    m = BYTE_RANGE_RE.match(byte_range)
+    if not m:
+        raise ValueError("Invalid byte range %s" % byte_range)
+
+    first, last = [x and int(x) for x in m.groups()]
+    if last and last < first:
+        raise ValueError("Invalid byte range %s" % byte_range)
+    return first, last
+
+
+class RangeRequestHandler(SimpleHTTPRequestHandler):
+    """Adds support for HTTP 'Range' requests to SimpleHTTPRequestHandler
+
+    The approach is to:
+    - Override send_head to look for 'Range' and respond appropriately.
+    - Override copyfile to only transmit a range when requested.
+    """
+
+    def handle(self):
+        try:
+            SimpleHTTPRequestHandler.handle(self)
+        except Exception:
+            # ignored, thrown whenever the client aborts streaming (broken pipe)
+            pass
+
+    def send_head(self):
+        if "Range" not in self.headers:
+            self.range = None
+            return SimpleHTTPRequestHandler.send_head(self)
+        try:
+            self.range = parse_byte_range(self.headers["Range"])
+        except ValueError:
+            self.send_error(400, "Invalid byte range")
+            return None
+        first, last = self.range
+
+        # Mirroring SimpleHTTPServer.py here
+        path = self.translate_path(self.path)
+        f = None
+        ctype = self.guess_type(path)
+        try:
+            f = open(path, "rb")
+        except IOError:
+            self.send_error(404, "File not found")
+            return None
+
+        fs = os.fstat(f.fileno())
+        file_len = fs[6]
+        if first >= file_len:
+            self.send_error(416, "Requested Range Not Satisfiable")
+            return None
+
+        self.send_response(206)
+        self.send_header("Content-type", ctype)
+
+        if last is None or last >= file_len:
+            last = file_len - 1
+        response_length = last - first + 1
+
+        self.send_header("Content-Range", "bytes %s-%s/%s" % (first, last, file_len))
+        self.send_header("Content-Length", str(response_length))
+        self.send_header("Last-Modified", self.date_time_string(fs.st_mtime))
+        self.end_headers()
+        return f
+
+    def end_headers(self):
+        self.send_header("Accept-Ranges", "bytes")
+        return SimpleHTTPRequestHandler.end_headers(self)
+
+    def copyfile(self, source, outputfile):
+        if not self.range:
+            return SimpleHTTPRequestHandler.copyfile(self, source, outputfile)
+
+        # SimpleHTTPRequestHandler uses shutil.copyfileobj, which doesn't let
+        # you stop the copying before the end of the file.
+        start, stop = self.range  # set in send_head()
+        copy_byte_range(source, outputfile, start, stop)
+
+
+class ThreadedTCPServer(socketserver.ThreadingMixIn, socketserver.TCPServer):
+    allow_reuse_address = True
+
+
+if __name__ == "__main__":
+    parser = argparse.ArgumentParser(
+        description="Tiny Python Web Server supporting range requests, for local viewing of unzipped Galaxy JBrowse2 configurations"
+    )
+    parser.add_argument(
+        "--root",
+        default=os.getcwd(),
+        help="Root path to serve files from (default: current working directory)",
+    )
+    parser.add_argument(
+        "--port",
+        type=int,
+        default=DEFAULT_PORT,
+        help=f"Port to listen on (default: {DEFAULT_PORT})",
+    )
+    parser.add_argument(
+        "--bind",
+        default="127.0.0.1",
+        help="IP address to bind to (default: 127.0.0.1 - use 0.0.0.0 to allow access on your network)",
+    )
+    args = parser.parse_args()
+
+    handler = functools.partial(RangeRequestHandler, directory=args.root)
+
+    webbrowser.open(f"http://{args.bind}:{args.port}")
+
+    with ThreadedTCPServer((args.bind, args.port), handler) as httpd:
+        print(
+            f"Serving HTTP on {args.bind} port {args.port} (http://{args.bind}:{args.port}/)"
+        )
+        httpd.serve_forever()

diff -r 137e08517410 -r 49f3d3878413 x/manifest.json
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/manifest.json Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,15 @@
+{
+  "short_name": "JBrowse",
+  "name": "JBrowse",
+  "icons": [
+    {
+      "src": "favicon.ico",
+      "sizes": "64x64 48x48 32x32 24x24 16x16",
+      "type": "image/x-icon"
+    }
+  ],
+  "start_url": ".",
+  "display": "standalone",
+  "theme_color": "#396494",
+  "background_color": "#fafafa"
+}

diff -r 137e08517410 -r 49f3d3878413 x/me.r.l.i-n.bw_0

Binary file x/me.r.l.i-n.bw_0 has changed

diff -r 137e08517410 -r 49f3d3878413 x/merlin.fa.fa.gz

Binary file x/merlin.fa.fa.gz has changed

diff -r 137e08517410 -r 49f3d3878413 x/merlin.fa.fa.gz.fai
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/merlin.fa.fa.gz.fai Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,1 @@
+Merlin 172788 8 60 61

diff -r 137e08517410 -r 49f3d3878413 x/merlin.fa.fa.gz.gzi

Binary file x/merlin.fa.fa.gz.gzi has changed

diff -r 137e08517410 -r 49f3d3878413 x/metadata_conda_debug.yaml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/metadata_conda_debug.yaml Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,33 @@
+package:
+  name: jbrowse2
+  version: 2.15.4
+source:
+  sha256: fa0a6163dab65d1705c1968cc41adc0f6b035a8fbc572b7ddff12721b5b58642
+  url: https://github.com/GMOD/jbrowse-components/releases/download/v2.15.4/jbrowse-web-v2.15.4.zip
+build:
+  noarch: generic
+  number: '0'
+  run_exports:
+    - jbrowse2
+requirements:
+  host:
+    - nodejs
+  run:
+    - nodejs
+    - bcftools
+    - gff3sort
+    - htslib
+    - samtools
+test:
+  commands:
+    - jbrowse help | grep "command line tool for working with JBrowse"
+about:
+  home: https://jbrowse.org/
+  license: Apache-2.0
+  license_family: Apache
+  summary: The JBrowse 2 Genome Browser
+extra:
+  final: false
+  identifiers:
+    - biotools:jbrowse
+    - doi:10.1101/gr.094607.109

diff -r 137e08517410 -r 49f3d3878413 x/static/css/3120.6d3f3959.chunk.css
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/css/3120.6d3f3959.chunk.css Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,71 @@
+/* roboto-cyrillic-ext-400-normal */
+@font-face {
+  font-family: 'Roboto';
+  font-style: normal;
+  font-display: swap;
+  font-weight: 400;
+  src: url(../../static/media/roboto-cyrillic-ext-400-normal.5cec61a21cc20180fbe1.woff2) format('woff2'), url(../../static/media/roboto-cyrillic-ext-400-normal.135d076fa32aa0b4d105.woff) format('woff');
+  unicode-range: U+0460-052F,U+1C80-1C88,U+20B4,U+2DE0-2DFF,U+A640-A69F,U+FE2E-FE2F;
+}
+
+/* roboto-cyrillic-400-normal */
+@font-face {
+  font-family: 'Roboto';
+  font-style: normal;
+  font-display: swap;
+  font-weight: 400;
+  src: url(../../static/media/roboto-cyrillic-400-normal.a9e19870cf6c4b973427.woff2) format('woff2'), url(../../static/media/roboto-cyrillic-400-normal.5d2930082227d172f62c.woff) format('woff');
+  unicode-range: U+0301,U+0400-045F,U+0490-0491,U+04B0-04B1,U+2116;
+}
+
+/* roboto-greek-ext-400-normal */
+@font-face {
+  font-family: 'Roboto';
+  font-style: normal;
+  font-display: swap;
+  font-weight: 400;
+  src: url(../../static/media/roboto-greek-ext-400-normal.1df4abad55796d11a0c8.woff2) format('woff2'), url(../../static/media/roboto-greek-ext-400-normal.16eb83b4a3b1ea994243.woff) format('woff');
+  unicode-range: U+1F00-1FFF;
+}
+
+/* roboto-greek-400-normal */
+@font-face {
+  font-family: 'Roboto';
+  font-style: normal;
+  font-display: swap;
+  font-weight: 400;
+  src: url(../../static/media/roboto-greek-400-normal.2c32b1315be61477013a.woff2) format('woff2'), url(../../static/media/roboto-greek-400-normal.160a791a8e4f46bca3cc.woff) format('woff');
+  unicode-range: U+0370-0377,U+037A-037F,U+0384-038A,U+038C,U+038E-03A1,U+03A3-03FF;
+}
+
+/* roboto-vietnamese-400-normal */
+@font-face {
+  font-family: 'Roboto';
+  font-style: normal;
+  font-display: swap;
+  font-weight: 400;
+  src: url(../../static/media/roboto-vietnamese-400-normal.d3f8e26d6c27de8102b6.woff2) format('woff2'), url(../../static/media/roboto-vietnamese-400-normal.0dc97c66f9b542d6fa17.woff) format('woff');
+  unicode-range: U+0102-0103,U+0110-0111,U+0128-0129,U+0168-0169,U+01A0-01A1,U+01AF-01B0,U+0300-0301,U+0303-0304,U+0308-0309,U+0323,U+0329,U+1EA0-1EF9,U+20AB;
+}
+
+/* roboto-latin-ext-400-normal */
+@font-face {
+  font-family: 'Roboto';
+  font-style: normal;
+  font-display: swap;
+  font-weight: 400;
+  src: url(../../static/media/roboto-latin-ext-400-normal.2eeae187764baf05867d.woff2) format('woff2'), url(../../static/media/roboto-latin-ext-400-normal.27da5b36b6d3a16f53f4.woff) format('woff');
+  unicode-range: U+0100-02AF,U+0304,U+0308,U+0329,U+1E00-1E9F,U+1EF2-1EFF,U+2020,U+20A0-20AB,U+20AD-20C0,U+2113,U+2C60-2C7F,U+A720-A7FF;
+}
+
+/* roboto-latin-400-normal */
+@font-face {
+  font-family: 'Roboto';
+  font-style: normal;
+  font-display: swap;
+  font-weight: 400;
+  src: url(../../static/media/roboto-latin-400-normal.297d48e1b5a10c0831a9.woff2) format('woff2'), url(../../static/media/roboto-latin-400-normal.047a7839f69b209db815.woff) format('woff');
+  unicode-range: U+0000-00FF,U+0131,U+0152-0153,U+02BB-02BC,U+02C6,U+02DA,U+02DC,U+0304,U+0308,U+0329,U+2000-206F,U+2074,U+20AC,U+2122,U+2191,U+2193,U+2212,U+2215,U+FEFF,U+FFFD;
+}
+
+/*# sourceMappingURL=3120.6d3f3959.chunk.css.map*/
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/css/3120.6d3f3959.chunk.css.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/css/3120.6d3f3959.chunk.css.map Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/1012.a7d14de3.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1012.a7d14de3.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[1012],{21012:(e,s,t)=>{t.r(s),t.d(s,{default:()=>l.A,getToggleButtonGroupUtilityClass:()=>o.y,toggleButtonGroupClasses:()=>o.A});var l=t(43787),o=t(67647)}}]);
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1029.8c806427.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1029.8c806427.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[1029],{41029:(s,a,e)=>{e.r(a),e.d(a,{default:()=>l.A,dialogClasses:()=>b.A,getDialogUtilityClass:()=>b.f});var l=e(40985),b=e(23113)}}]);
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1051.8e1641e2.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1051.8e1641e2.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1051.8e1641e2.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1051.8e1641e2.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1110.702cba94.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1157.c0d4652e.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1157.c0d4652e.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1157.c0d4652e.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1157.c0d4652e.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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Container.propTypes /* remove-proptypes */ = {\\n // \xe2\x94\x8c\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80 Warning \xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x90\\n // \xe2\x94\x82 These PropTypes are generated from the TypeScript type definitions. \xe2\x94\x82\\n // \xe2\x94\x82 To update them, edit the d.ts file and run `pnpm proptypes`. \xe2\x94\x82\\n // \xe2\x94\x94\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x98\\n /**\\n * @ignore\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * If `true`, the left and right padding is removed.\\n * @default false\\n */\\n disableGutters: PropTypes.bool,\\n /**\\n * Set the max-width to match the min-width of the current breakpoint.\\n * This is useful if you\'d prefer to design for a fixed set of sizes\\n * instead of trying to accommodate a fully fluid viewport.\\n * It\'s fluid by default.\\n * @default false\\n */\\n fixed: PropTypes.bool,\\n /**\\n * Determine the max-width of the container.\\n * The container width grows with the size of the screen.\\n * Set to `false` to disable `maxWidth`.\\n * @default \'lg\'\\n */\\n maxWidth: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'xs\', \'sm\', \'md\', \'lg\', \'xl\', false]), PropTypes.string]),\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object])\\n} : void 0;\\nexport default Container;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getContainerUtilityClass(slot) {\\n return generateUtilityClass(\'MuiContainer\', slot);\\n}\\nconst containerClasses = generateUtilityClasses(\'MuiContainer\', [\'root\', \'disableGutters\', \'fixed\', \'maxWidthXs\', \'maxWidthSm\', \'maxWidthMd\', \'maxWidthLg\', \'maxWidthXl\']);\\nexport default containerClasses;","import createStyled from \\"../createStyled/index.js\\";\\nconst styled = createStyled();\\nexport default styled;"],"names":["defaultTheme","createTheme","defaultCreateStyledComponent","name","slot","overridesResolver","props","styles","ownerState","root","capitalize","String","maxWidth","fixed","disableGutters","useThemePropsDefault","inProps","useThemeProps","Container","options","createStyledComponent","componentName","ContainerRoot","theme","width","marginLeft","boxSizing","marginRight","paddingLeft","spacing","paddingRight","breakpoints","up","Object","keys","values","reduce","acc","breakpointValueKey","breakpoint","value","unit","Math","max","xs","ref","className","component","classes","classesProp","other","slots","composeClasses","generateUtilityClass","useUtilityClasses","as","clsx","createContainer","getContainerUtilityClass","generateUtilityClasses"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/1189.f18c6e1f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1189.f18c6e1f.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1189.f18c6e1f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1189.f18c6e1f.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/12.c0c7bdf9.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/12.c0c7bdf9.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/12.c0c7bdf9.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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Icon.propTypes /* remove-proptypes */ = {\\n // \xe2\x94\x8c\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80 Warning \xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x90\\n // \xe2\x94\x82 These PropTypes are generated from the TypeScript type definitions. \xe2\x94\x82\\n // \xe2\x94\x82 To update them, edit the d.ts file and run `pnpm proptypes`. \xe2\x94\x82\\n // \xe2\x94\x94\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x98\\n /**\\n * The base class applied to the icon. Defaults to \'material-icons\', but can be changed to any\\n * other base class that suits the icon font you\'re using (for example material-icons-rounded, fas, etc).\\n * @default \'material-icons\'\\n */\\n baseClassName: PropTypes.string,\\n /**\\n * The name of the icon font ligature.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The color of the component.\\n * It supports both default and custom theme colors, which can be added as shown in the\\n * [palette customization guide](https://mui.com/material-ui/customization/palette/#custom-colors).\\n * @default \'inherit\'\\n */\\n color: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'inherit\', \'action\', \'disabled\', \'primary\', \'secondary\', \'error\', \'info\', \'success\', \'warning\']), PropTypes.string]),\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * The fontSize applied to the icon. Defaults to 24px, but can be configure to inherit font size.\\n * @default \'medium\'\\n */\\n fontSize: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'inherit\', \'large\', \'medium\', \'small\']), PropTypes.string]),\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object])\\n} : void 0;\\nif (Icon) {\\n Icon.muiName = \'Icon\';\\n}\\nexport default Icon;"],"names":["getIconUtilityClass","slot","generateUtilityClass","generateUtilityClasses","IconRoot","styled","name","overridesResolver","props","styles","ownerState","root","color","capitalize","fontSize","memoTheme","theme","userSelect","width","height","overflow","display","textAlign","flexShrink","variants","style","typography","pxToRem","vars","palette","action","active","disabled","undefined","Object","entries","filter","createSimplePaletteValueFilter","map","main","Icon","inProps","ref","baseClassName","className","component","Component","other","classes","slots","composeClasses","useUtilityClasses","as","clsx","muiName"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/120.a447052d.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/120.a447052d.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1260.ee4ecbf4.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1260.ee4ecbf4.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1260.ee4ecbf4.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1266.cd6d9354.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1266.cd6d9354.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1266.cd6d9354.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1266.cd6d9354.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1281.1d836fc4.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1281.1d836fc4.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1281.1d836fc4.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1281.1d836fc4.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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A track will be created with the\n resulting matches once submitted. You can also supply regex style\n expressions e.g. AACT(C|T).\n </Typography>\n <TextField\n value={value}\n onChange={e => {\n setValue(e.target.value)\n }}\n helperText=\"Sequence search pattern\"\n />\n <FormGroup>\n <FormControlLabel\n control={\n <Checkbox\n checked={searchForward}\n onChange={event => {\n setSearchForward(event.target.checked)\n }}\n />\n }\n label=\"Search forward strand\"\n />\n <FormControlLabel\n control={\n <Checkbox\n checked={searchReverse}\n onChange={event => {\n setSearchReverse(event.target.checked)\n }}\n />\n }\n label=\"Search reverse strand\"\n />\n <FormControlLabel\n control={\n <Checkbox\n checked={caseInsensitive}\n onChange={event => {\n setCaseInsensitive(event.target.checked)\n }}\n />\n }\n label=\"Case insensitive\"\n />\n </FormGroup>\n {error ? <Typography color=\"error\">{`${error}`}</Typography> : null}\n </DialogContent>\n <DialogActions>\n <Button\n onClick={() => {\n if (value) {\n const trackId = `sequence_search_${+Date.now()}`\n const session = getSession(model)\n const { assemblyManager } = session\n const assemblyName = model.assemblyNames[0]!\n if (isSessionWithAddTracks(session)) {\n session.addTrackConf({\n trackId,\n name: `Sequence search ${value}`,\n assemblyNames: [assemblyName],\n type: 'FeatureTrack',\n adapter: {\n type: 'SequenceSearchAdapter',\n search: value,\n searchForward,\n searchReverse,\n caseInsensitive,\n sequenceAdapter: getSnapshot(\n assemblyManager.get(assemblyName)?.configuration.sequence\n .adapter,\n ),\n },\n })\n model.showTrack(trackId)\n }\n }\n handleClose()\n }}\n variant=\"contained\"\n color=\"primary\"\n >\n Submit\n </Button>\n\n <Button\n onClick={() => {\n handleClose()\n }}\n variant=\"contained\"\n color=\"secondary\"\n >\n Close\n </Button>\n </DialogActions>\n </Dialog>\n )\n})\n\nexport default SequenceSearchDialog\n"],"names":["useStyles","makeStyles","dialogContent","width","observer","model","handleClose","classes","value","setValue","useState","searchForward","setSearchForward","searchReverse","setSearchReverse","caseInsensitive","setCaseInsensitive","error","RegExp","e","React","Dialog","maxWidth","open","onClose","title","DialogContent","className","Typography","TextField","onChange","target","helperText","FormGroup","FormControlLabel","control","Checkbox","checked","event","label","color","DialogActions","Button","onClick","trackId","Date","now","session","getSession","assemblyManager","assemblyName","assemblyNames","isSessionWithAddTracks","addTrackConf","name","type","adapter","search","sequenceAdapter","getSnapshot","get","configuration","sequence","showTrack","variant"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/1304.a512b560.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1304.a512b560.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1304.a512b560.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1304.a512b560.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1310.8a044016.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1326.19289940.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1345.aaaaf175.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1345.aaaaf175.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1345.aaaaf175.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1354.ded982ce.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/14.b9913d1d.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/14.b9913d1d.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/14.b9913d1d.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/14.b9913d1d.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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i < lines.length; i++) {\\n const line = lines[i]!\\n const cols = line.split(\'\\\\t\')\\n const r1 = cols[0]!\\n const r2 = cols[3]!\\n if (!feats1[r1]) {\\n feats1[r1] = []\\n }\\n if (!feats2[r2]) {\\n feats2[r2] = []\\n }\\n feats1[r1].push(line)\\n feats2[r2].push(line)\\n }\\n const columnNames = this.getConf(\'columnNames\')\\n\\n return {\\n header,\\n feats1,\\n feats2,\\n columnNames,\\n }\\n }\\n\\n private async loadData(opts: BaseOptions = {}) {\\n if (!this.bedpeFeatures) {\\n this.bedpeFeatures = this.loadDataP(opts).catch((e: unknown) => {\\n this.bedpeFeatures = undefined\\n throw e\\n })\\n }\\n\\n return this.bedpeFeatures\\n }\\n\\n public async getRefNames(opts: BaseOptions = {}) {\\n const { feats1, feats2 } = await this.loadData(opts)\\n return [...new Set([...Object.keys(feats1), ...Object.keys(feats2)])]\\n }\\n\\n async getHeader(opts: BaseOptions = {}) {\\n const { header } = await this.loadData(opts)\\n return header\\n }\\n\\n async getNames() {\\n const { header, columnNames } = await this.loadData()\\n if (columnNames.length) {\\n return columnNames\\n }\\n const defs = header.split(/\\\\n|\\\\r\\\\n|\\\\r/).filter(f => !!f)\\n const defline = defs.at(-1)\\n return defline?.includes(\'\\\\t\')\\n ? defline\\n .slice(1)\\n .split(\'\\\\t\')\\n .map(field => field.trim())\\n : undefined\\n }\\n\\n private async loadFeatureTreeP(refName: string) {\\n const { feats1, feats2 } = await this.loadData()\\n const names = await this.getNames()\\n const intervalTree = new IntervalTree()\\n const ret1 =\\n feats1[refName]?.map((f, i) =>\\n featureData(f, `${this.id}-${refName}-${i}-r1`, false, names),\\n ) ?? []\\n const ret2 =\\n feats2[refName]?.map((f, i) =>\\n featureData(f, `${this.id}-${refName}-${i}-r2`, true, names),\\n ) ?? []\\n\\n for (const obj of [...ret1, ...ret2]) {\\n intervalTree.insert([obj.get(\'start\'), obj.get(\'end\')], obj)\\n }\\n\\n return intervalTree\\n }\\n\\n private async loadFeatureTree(refName: string) {\\n if (!this.intervalTrees[refName]) {\\n this.intervalTrees[refName] = this.loadFeatureTreeP(refName).catch(\\n (e: unknown) => {\\n this.intervalTrees[refName] = undefined\\n throw e\\n },\\n )\\n }\\n return this.intervalTrees[refName]\\n }\\n\\n public getFeatures(query: Region, opts: BaseOptions = {}) {\\n return ObservableCreate<Feature>(async observer => {\\n const { start, end, refName } = query\\n const intervalTree = await this.loadFeatureTree(refName)\\n intervalTree?.search([start, end]).forEach(f => {\\n observer.next(f)\\n })\\n observer.complete()\\n }, opts.signal)\\n }\\n\\n public freeResources(): void {}\\n}\\n"],"names":["svTypes","Set","featureData","line","uniqueId","flip","names","l","split","ref1","start1","end1","ref2","start2","end2","name","score","strand1","parseStrand","strand2","extra","slice","rest","Object","fromEntries","map","n","idx","ALT","has","undefined","SimpleFeature","start","end","type","refName","strand","mate","BedpeAdapter","BaseFeatureDataAdapter","intervalTrees","loadDataP","opts","pm","this","pluginManager","bedLoc","getConf","buf","openLocation","readFile","buffer","isGzip","unzip","length","Error","lines","TextDecoder","fatal","decode","filter","f","headerLines","i","startsWith","push","header","join","feats1","feats2","cols","r1","r2","columnNames","loadData","bedpeFeatures","catch","e","getRefNames","keys","getHeader","getNames","defline","at","includes","field","trim","loadFeatureTreeP","intervalTree","IntervalTree","ret1","id","ret2","obj","insert","get","loadFeatureTree","getFeatures","query","ObservableCreate","async","search","forEach","observer","next","complete","signal","freeResources"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/1503.cc48d25a.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1503.cc48d25a.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

b'@@ -0,0 +1,2 @@\n+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[1503],{61503:(e,t,r)=>{r.r(t),r.d(t,{default:()=>y});var n=r(46377),s=r(99834),a=r(66885),i=r(32598),o=r(99546),c=r(7706);const l=["seq_name","source","featureType","start","end","score","strand","frame","attributes"];function u(e){return null===e?null:String(e).replace(/%([0-9A-Fa-f]{2})/g,((e,t)=>String.fromCharCode(parseInt(t,16))))}function f(e,t){return String(t).replace(e,(e=>{let t=e.charCodeAt(0).toString(16).toUpperCase();return t.length<2&&(t=`0${t}`),`%${t}`}))}function h(e){return f(/[\\n;\\r\\t=%&,\\x00-\\x1f\\x7f-\\xff]/g,e)}const d=["-",".","+"];function p(e,t){const r=null===e.attributes||void 0===e.attributes?".":function(e){const t=[];return Object.keys(e).forEach((r=>{const n=e[r];let s;s=n.hasOwnProperty("toString")?h(n.toString()):Array.isArray(n.values)?n.values.map(h).join(","):Array.isArray(n)?n.map(h).join(","):h(n),t.push(`${h(r)} ${s}`)})),t.length?t.join("; ").concat(";"):"."}(e.attributes),n=[];for(let t=0;t<8;t+=1){const r=e[l[t]];n[t]=6===t?null==r?".":d[r+1]||r:null==r?".":f(/[\\n\\r\\t%\\x00-\\x1f\\x7f-\\xff]/g,String(r))}n[8]=r;const s=`${n.join("\\t")}\\n`;return t[s]?"":(t[s]=!0,s)}function m(e,t){if(Array.isArray(e))return e.map((e=>m(e,t))).join("");const r=[p(e,t)];return["child_features","derived_features"].forEach((n=>{e[n]&&r.push(...e[n].map((e=>m(e,t))))})),r.join("")}function _(e){return m(e,{})}const b={Parent:"child_features",Derives_from:"derived_features"};class v{constructor(e){const t=()=>{};Object.assign(this,{featureCallback:e.featureCallback||t,endCallback:e.endCallback||t,commentCallback:e.commentCallback||t,errorCallback:e.errorCallback||t,directiveCallback:e.directiveCallback||t,sequenceCallback:e.sequenceCallback||t,bufferSize:void 0===e.bufferSize?1e3:e.bufferSize,_underConstructionTopLevel:[],_underConstructionById:{},_completedReferences:{},_underConstructionOrphans:{},eof:!1,lineNumber:0})}addLine(e){if(this.eof)return;if(this.lineNumber+=1,/^\\s*[^#\\s>]/.test(e))return void this._bufferLine(e);const t=/^\\s*(#+)(.*)/.exec(e);if(t){let[,r,n]=t;if(3===r.length)this._emitAllUnderConstructionFeatures();else if(2===r.length){const t=function(e){const t=/^\\s*##\\s*(\\S+)\\s*(.*)/.exec(e);if(!t)return null;const r=t[1];let n=t[2];const s={directive:r};if(n.length&&(n=n.replace(/\\r?\\n$/,""),s.value=n),"sequence-region"===r){const[e,t,r]=n.split(/\\s+/,3);s.seq_id=e,s.start=t&&t.replace(/\\D/g,""),s.end=r&&r.replace(/\\D/g,"")}else if("genome-build"===r){const[e,t]=n.split(/\\s+/,2);s.source=e,s.buildname=t}return s}(e);this._emitItem(t)}else n=n.replace(/\\s*/,""),this._emitItem({comment:n})}else if(!/^\\s*$/.test(e)){const t=e.replace(/\\r?\\n?$/g,"");throw new Error(`GTF parse error. Cannot parse \'${t}\'.`)}}_emitItem(e){e[0]?this.featureCallback(e):e.directive?this.directiveCallback(e):e.comment&&this.commentCallback(e)}finish(){this._emitAllUnderConstructionFeatures(),this.endCallback()}_enforceBufferSizeLimit(e=0){const t=e=>{var r,n,s;(null===(s=null===(n=null===(r=null==e?void 0:e[0])||void 0===r?void 0:r.attributes)||void 0===n?void 0:n.ID)||void 0===s?void 0:s[0])&&(e[0].attributes.ID.forEach((e=>{delete this._underConstructionById[e],delete this._completedReferences[e]})),e.forEach((e=>{e.child_features&&e.child_features.forEach((e=>{t(e)})),e.derived_features&&e.derived_features.forEach((e=>{t(e)}))})))};for(;this._underConstructionTopLevel.length+e>this.bufferSize;){const e=this._underConstructionTopLevel.shift();this._emitItem(e),t(e)}}_emitAllUnderConstructionFeatures(){if(this._underConstructionTopLevel.forEach(this._emitItem.bind(this)),this._underConstructionTopLevel=[],this._underConstructionById={},this._completedReferences={},Object.values(this._underConstructionOrphans).filter((e=>Object.keys(e).length)).length)throw new Error(`some features reference other features that do not exist in the file (or in the same \'###\' scope). ${JSON.stringify(this._underConstructionOr'..b'o=[t],this._enforceBufferSizeLimit(1),a.length||i.length||this._underConstructionTopLevel.push(o),this._underConstructionById[e]=o,this._resolveReferencesTo(o,e))})),this._resolveReferencesFrom(o||[t],{Parent:a,Derives_from:i},s)}_resolveReferencesTo(e,t){const r=this._underConstructionOrphans[t];r&&Object.keys(r).forEach((t=>{const n=b[t]||t.toLowerCase();e.forEach((e=>{e[n].push(...r[t]),delete r[t]}))}))}_parseError(e){this.eof=!0,this.errorCallback(`${this.lineNumber}: ${e}`)}_resolveReferencesFrom(e,t,r){Object.entries(t).forEach((([t,n])=>{let s;n.forEach((n=>{const a=this._underConstructionById[n];var i,o;a?(o=e,(i=a)[0].start=Math.min(i[0].start,o[0].start),i[0].end=Math.max(i[0].end,o[0].end),s||(s=b[t]||t.toLowerCase()),r.filter((e=>function(e,t,r){let n=e[t];n||(n={},e[t]=n);const s=n[r]||!1;return n[r]=!0,s}(this._completedReferences,e,`${t},${n}`))).length||a.forEach((t=>{t[s].push(e)}))):(this._underConstructionOrphans[n]||(this._underConstructionOrphans[n]={}),this._underConstructionOrphans[n][t]||(this._underConstructionOrphans[n][t]=[]),this._underConstructionOrphans[n][t].push(e))}))}))}}function g(e){const t={...e};t.start-=1,t.strand={"+":1,"-":-1,".":0,"?":void 0}[e.strand],t.phase=Number(e.frame),t.refName=e.seq_name,null===e.score&&(t.score=void 0),null===e.frame&&(t.score=void 0);const r=new Set(["start","end","seq_name","score","featureType","source","frame","strand"]);for(const n of Object.keys(e.attributes)){let s=n.toLowerCase();if(r.has(s)&&(s+="2"),e.attributes[n]){let r=e.attributes[n];Array.isArray(r)&&1===r.length&&(r=r[0].replaceAll(/^"|"$/g,"")),t[s]=r}}return t.refName=t.seq_name,t.type=t.featureType,e.child_features&&e.child_features.length>0&&(t.subfeatures=e.child_features.flatMap((e=>e.map((e=>g(e)))))),t.child_features=void 0,t.data=void 0,t.derived_features=void 0,t._linehash=void 0,t.attributes=void 0,t.seq_name=void 0,t.featureType=void 0,t.frame=void 0,t.transcript_id&&(t.name=t.transcript_id),t}const C="undefined"!=typeof TextDecoder?new TextDecoder("utf8"):void 0;class y extends n.BaseFeatureDataAdapter{calculatedIntervalTreeMap={};async loadDataP(e){const{statusCallback:t=()=>{}}=e||{},r=await(0,s.openLocation)(this.getConf("gtfLocation"),this.pluginManager).readFile(e),n=(0,o.isGzip)(r)?await(0,o.updateStatus)("Unzipping",t,(()=>(0,c.unzip)(r))):r,a=[],l={};let u=0,f=0;for(;u<n.length;){const e=n.indexOf("\\n",u),r=-1===e?n.subarray(u):n.subarray(u,e),s=(C?.decode(r)||r.toString()).trim();if(s)if(s.startsWith("#"))a.push(s);else{if(s.startsWith(">"))break;{const e=s.indexOf("\\t"),t=s.slice(0,e);l[t]||(l[t]=""),l[t]+=`${s}\\n`}}f++%1e4==0&&t(`Loading ${Math.floor(u/1e6).toLocaleString("en-US")}/${Math.floor(n.length/1e6).toLocaleString("en-US")} MB`),u=e+1}const h=Object.fromEntries(Object.entries(l).map((([e,t])=>[e,r=>{if(!this.calculatedIntervalTreeMap[e]){r?.("Parsing GTF data");const n=new i.Ay;(function(e){if(!e)return[];const t=[],r=new v({featureCallback:e=>t.push(e),errorCallback:e=>{throw e}});for(const t of e.split(/\\r?\\n/))r.addLine(t);return r.finish(),t})(t).flat().map(((t,r)=>new o.SimpleFeature({data:g(t),id:`${this.id}-${e}-${r}`}))).forEach((e=>n.insert([e.get("start"),e.get("end")],e))),this.calculatedIntervalTreeMap[e]=n}return this.calculatedIntervalTreeMap[e]}])));return{header:a.join("\\n"),intervalTreeMap:h}}async loadData(e={}){return this.gtfFeatures||(this.gtfFeatures=this.loadDataP(e).catch((e=>{throw this.gtfFeatures=void 0,e}))),this.gtfFeatures}async getRefNames(e={}){const{intervalTreeMap:t}=await this.loadData(e);return Object.keys(t)}async getHeader(e={}){const{header:t}=await this.loadData(e);return t}getFeatures(e,t={}){return(0,a.ObservableCreate)((async r=>{try{const{start:n,end:s,refName:a}=e,{intervalTreeMap:i}=await this.loadData(t);i[a]?.(t.statusCallback).search([n,s]).forEach((e=>{r.next(e)})),r.complete()}catch(e){r.error(e)}}),t.signal)}freeResources(){}}}}]);\n+//# sourceMappingURL=1503.cc48d25a.chunk.js.map\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/1503.cc48d25a.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1503.cc48d25a.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1516.ca4ab8f0.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1516.ca4ab8f0.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1516.ca4ab8f0.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1516.ca4ab8f0.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1537.4fdb4e95.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1537.4fdb4e95.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1537.4fdb4e95.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1537.4fdb4e95.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/1598.3b48685f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1598.3b48685f.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/1598.3b48685f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1598.3b48685f.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1637.21a8cf01.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1696.8a290cef.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1696.8a290cef.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1696.8a290cef.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1725.795fc4d3.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1725.795fc4d3.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1752.a727a500.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1752.a727a500.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1752.a727a500.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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negColor : posColor\\n } else if (colorBy === \'default\') {\\n r = isCallback\\n ? readConfObject(config, \'color\', { feature })\\n : color === \'#f0f\'\\n ? t.palette.text.primary\\n : color\\n }\\n ctx.fillStyle = r\\n ctx.strokeStyle = r\\n\\n const b10 = bpToPx({ self: hsnap, refName, coord: start })\\n const b20 = bpToPx({ self: hsnap, refName, coord: end })\\n const e10 = bpToPx({ self: vsnap, refName: mateRef, coord: mate.start })\\n const e20 = bpToPx({ self: vsnap, refName: mateRef, coord: mate.end })\\n if (\\n b10 !== undefined &&\\n b20 !== undefined &&\\n e10 !== undefined &&\\n e20 !== undefined\\n ) {\\n const b1 = b10.offsetPx - db1!\\n const b2 = b20.offsetPx - db1!\\n const e1 = e10.offsetPx - db2!\\n const e2 = e20.offsetPx - db2!\\n if (Math.abs(b1 - b2) <= 4 && Math.abs(e1 - e2) <= 4) {\\n drawCir(ctx, b1, height - e1, lineWidth)\\n } else {\\n let currX = b1\\n let currY = e1\\n const cigar = feature.get(\'CIGAR\')\\n if (drawCigar && cigar) {\\n const cigarOps = parseCigar(cigar)\\n\\n ctx.beginPath()\\n ctx.moveTo(currX, height - currY)\\n\\n let lastDrawnX = currX\\n let lastDrawnY = currX\\n for (let i = 0; i < cigarOps.length; i += 2) {\\n const val = +cigarOps[i]!\\n const op = cigarOps[i + 1]!\\n if (op === \'M\' || op === \'=\' || op === \'X\') {\\n currX += (val / hBpPerPx) * strand\\n currY += val / vBpPerPx\\n } else if (op === \'D\' || op === \'N\') {\\n currX += (val / hBpPerPx) * strand\\n } else if (op === \'I\') {\\n currY += val / vBpPerPx\\n }\\n currX = clampWithWarnX(currX, b1, b2, feature)\\n currY = clampWithWarnY(currY, e1, e2, feature)\\n\\n // only draw a line segment if it is bigger than 0.5px\\n if (\\n Math.abs(currX - lastDrawnX) > 0.5 ||\\n Math.abs(currY - lastDrawnY) > 0.5\\n ) {\\n ctx.lineTo(currX, height - currY)\\n lastDrawnX = currX\\n lastDrawnY = currY\\n }\\n }\\n\\n ctx.stroke()\\n } else {\\n ctx.beginPath()\\n ctx.moveTo(b1, height - e1)\\n ctx.lineTo(b2, height - e2)\\n ctx.stroke()\\n }\\n }\\n } else {\\n if (warnings.length <= 5) {\\n if (b10 === undefined || b20 === undefined) {\\n warnings.push({\\n message: `feature at (X ${refName}:${start}-${end}) not plotted, fell outside of range`,\\n effect: \'feature not rendered\',\\n })\\n } else {\\n warnings.push({\\n message: `feature at (Y ${mateRef}:${mate.start}-${mate.end}) not plotted, fell outside of range`,\\n effect: \'feature not rendered\',\\n })\\n }\\n }\\n }\\n }\\n\\n return { warnings }\\n}\\n"],"names":["parseCigar","MismatchParser","r","lt","gt","fudgeFactor","drawCir","ctx","x","y","beginPath","arc","Math","PI","fill","async","drawDotplot","props","config","views","height","drawCigar","theme","color","readConfObject","posColor","negColor","colorBy","lineWidth","thresholds","palette","isCallback","hview","vview","db1","dynamicBlocks","contentBlocks","offsetPx","db2","warnings","bpPerPx","hBpPerPx","vBpPerPx","clampWithWarnX","num","min","max","feature","strand","get","start","end","refName","push","message","effect","clampWithWarnY","mate","hsnap","getSnapshot","staticBlocks","width","vsnap","t","createJBrowseTheme","features","mateRef","identity","i","length","text","primary","fillStyle","strokeStyle","b10","bpToPx","self","coord","b20","e10","e20","undefined","b1","b2","e1","e2","abs","currX","currY","cigar","cigarOps","moveTo","lastDrawnX","lastDrawnY","val","op","lineTo","stroke"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/1757.a6d05bc3.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1757.a6d05bc3.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1811.7cfd8419.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1811.7cfd8419.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1811.7cfd8419.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1811.7cfd8419.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
+{"version":3,"file":"static/js/1811.7cfd8419.chunk.js","mappings":"qOAQA,MAwDA,GAxD8BA,EAAAA,EAAAA,WAAS,UAAU,QAC/CC,EAAO,MACPC,IAKA,MAAM,kBAAEC,GAAsBD,EACxBE,EAAyC,IAA7BD,EAAkBE,OAEpC,OACEC,EAAAA,cAACC,EAAAA,OAAM,CAACC,MAAI,EAACP,QAASA,EAASQ,MAAM,oBACnCH,EAAAA,cAACI,EAAAA,EAAa,KACZJ,EAAAA,cAACK,EAAAA,EAAK,CAACC,SAAS,WACbR,EACCE,EAAAA,cAAAA,EAAAA,SAAA,KACEA,EAAAA,cAAA,YAAM,kCACNA,EAAAA,cAAA,WACAA,EAAAA,cAAA,YAAM,iEAKR,6CAINA,EAAAA,cAACO,EAAAA,EAAa,KACZP,EAAAA,cAACQ,EAAAA,EAAM,CACLC,QAAQ,YACRC,MAAM,YACNC,QAASA,KACPhB,GAAS,GAEZ,UAGDK,EAAAA,cAACQ,EAAAA,EAAM,CACLC,QAAQ,YACRC,MAAM,UACNC,QAASA,KACHb,GACFF,EAAMgB,oBAGRhB,EAAMiB,yBACNlB,GAAS,GAEZ,YAMT,G","sources":["../../../plugins/grid-bookmark/src/GridBookmarkWidget/components/dialogs/DeleteBookmarksDialog.tsx"],"sourcesContent":["import React from 'react'\nimport { observer } from 'mobx-react'\nimport { Button, DialogContent, DialogActions, Alert } from '@mui/material'\nimport { Dialog } from '@jbrowse/core/ui'\n\n// locals\nimport { GridBookmarkModel } from '../../model'\n\nconst DeleteBookmarksDialog = observer(function ({\n onClose,\n model,\n}: {\n onClose: () => void\n model: GridBookmarkModel\n}) {\n const { selectedBookmarks } = model\n const deleteAll = selectedBookmarks.length === 0\n\n return (\n <Dialog open onClose={onClose} title=\"Delete bookmarks\">\n <DialogContent>\n <Alert severity=\"warning\">\n {deleteAll ? (\n <>\n <span>All bookmarks will be deleted.</span>\n <br />\n <span>\n Use the checkboxes to select individual bookmarks to delete.\n </span>\n </>\n ) : (\n 'Only selected bookmarks will be deleted.'\n )}\n </Alert>\n </DialogContent>\n <DialogActions>\n <Button\n variant=\"contained\"\n color=\"secondary\"\n onClick={() => {\n onClose()\n }}\n >\n Cancel\n </Button>\n <Button\n variant=\"contained\"\n color=\"primary\"\n onClick={() => {\n if (deleteAll) {\n model.clearAllBookmarks()\n }\n\n model.clearSelectedBookmarks()\n onClose()\n }}\n >\n Confirm\n </Button>\n </DialogActions>\n </Dialog>\n )\n})\n\nexport default DeleteBookmarksDialog\n"],"names":["observer","onClose","model","selectedBookmarks","deleteAll","length","React","Dialog","open","title","DialogContent","Alert","severity","DialogActions","Button","variant","color","onClick","clearAllBookmarks","clearSelectedBookmarks"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/1822.2cbe112a.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1822.2cbe112a.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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+//# sourceMappingURL=1822.2cbe112a.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/1822.2cbe112a.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1822.2cbe112a.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1824.c2ed4bca.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1824.c2ed4bca.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1978.1faf7d31.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1978.1faf7d31.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1996.a37d9ec7.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1996.a37d9ec7.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/1999.2554e815.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/1999.2554e815.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2018.9ce7fb06.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2018.9ce7fb06.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2018.9ce7fb06.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2018.9ce7fb06.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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'' : '-sessionTrack',\n ].join('')\n\n // allow list of bigwigs in JSON format or line-by-line\n let bigWigs: unknown[]\n try {\n bigWigs = JSON.parse(val)\n } catch (e) {\n bigWigs = val\n .split(/\\n|\\r\\n|\\r/)\n .map(f => f.trim())\n .filter(f => !!f)\n }\n const obj =\n typeof bigWigs[0] === 'string'\n ? { bigWigs }\n : { subadapters: bigWigs }\n\n if (isSessionWithAddTracks(session)) {\n session.addTrackConf({\n trackId,\n type: 'MultiQuantitativeTrack',\n name: trackName,\n assemblyNames: [model.assembly],\n adapter: {\n type: 'MultiWiggleAdapter',\n ...obj,\n },\n })\n\n model.view?.showTrack(trackId)\n }\n model.clearData()\n if (isSessionModelWithWidgets(session)) {\n session.hideWidget(model)\n }\n }}\n >\n Submit\n </Button>\n\n <p>Additional notes: </p>\n <ul>\n <li>\n The list of bigwig files in the text box can be a list of URLs, or a\n list of elements like{' '}\n <code>{`[{\"type\":\"BigWigAdapter\",\"bigWigLocation\":{\"uri\":\"http://host/file.bw\"}, \"color\":\"green\",\"source\":\"name for subtrack\"}]`}</code>{' '}\n to apply e.g. the color attribute to the view\n </li>\n <li>\n Adding local files will update the textbox with JSON contents that are\n ready to submit with the \"Submit\" button\n </li>\n </ul>\n </Paper>\n )\n}\n"],"names":["useStyles","makeStyles","theme","textbox","width","paper","margin","spacing","padding","submit","marginTop","marginBottom","display","MultiWiggleWidget","model","classes","val","setVal","useState","trackName","setTrackName","Date","now","React","Paper","className","TextField","multiline","rows","value","onChange","event","target","placeholder","variant","Button","component","type","hidden","multiple","res","files","map","file","bigWigLocation","isElectron","localPath","path","locationType","storeBlobLocation","blob","source","name","JSON","stringify","helperText","onClick","session","getSession","trackId","toLowerCase","replaceAll","adminMode","join","bigWigs","parse","e","split","f","trim","filter","obj","subadapters","isSessionWithAddTracks","addTrackConf","assemblyNames","assembly","adapter","view","showTrack","clearData","isSessionModelWithWidgets","hideWidget"],"sourceRoot":""}
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2047.b1e80504.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2047.b1e80504.chunk.js Sat Oct 05 23:58:05 2024 +0000

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CardMedia.propTypes /* remove-proptypes */ = {\n // ┌────────────────────────────── Warning ──────────────────────────────┐\n // │ These PropTypes are generated from the TypeScript type definitions. │\n // │ To update them, edit the d.ts file and run `pnpm proptypes`. │\n // └─────────────────────────────────────────────────────────────────────┘\n /**\n * The content of the component.\n */\n children: chainPropTypes(PropTypes.node, props => {\n if (!props.children && !props.image && !props.src && !props.component) {\n return new Error('MUI: Either `children`, `image`, `src` or `component` prop must be specified.');\n }\n return null;\n }),\n /**\n * Override or extend the styles applied to the component.\n */\n classes: PropTypes.object,\n /**\n * @ignore\n */\n className: PropTypes.string,\n /**\n * The component used for the root node.\n * Either a string to use a HTML element or a component.\n */\n component: PropTypes.elementType,\n /**\n * Image to be displayed as a background image.\n * Either `image` or `src` prop must be specified.\n * Note that caller must specify height otherwise the image will not be visible.\n */\n image: PropTypes.string,\n /**\n * An alias for `image` property.\n * Available only with media components.\n * Media components: `video`, `audio`, `picture`, `iframe`, `img`.\n */\n src: PropTypes.string,\n /**\n * @ignore\n */\n style: PropTypes.object,\n /**\n * The system prop that allows defining system overrides as well as additional CSS styles.\n */\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object])\n} : void 0;\nexport default CardMedia;","import generateUtilityClasses from '@mui/utils/generateUtilityClasses';\nimport generateUtilityClass from '@mui/utils/generateUtilityClass';\nexport function getCardMediaUtilityClass(slot) {\n return generateUtilityClass('MuiCardMedia', slot);\n}\nconst cardMediaClasses = generateUtilityClasses('MuiCardMedia', ['root', 'media', 'img']);\nexport default cardMediaClasses;"],"names":["CardMediaRoot","name","slot","overridesResolver","props","styles","ownerState","isMediaComponent","isImageComponent","root","media","img","display","backgroundSize","backgroundRepeat","backgroundPosition","variants","style","width","objectFit","MEDIA_COMPONENTS","IMAGE_COMPONENTS","inProps","ref","children","className","component","image","src","other","includes","composedStyle","backgroundImage","classes","slots","useUtilityClasses","as","role","undefined","getCardMediaUtilityClass"],"sourceRoot":""}
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2189.3c65daf8.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2189.3c65daf8.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2197.a5134ce4.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2212.116fbbf4.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2241.3d359b22.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2241.3d359b22.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2241.3d359b22.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2246.e5e65a4f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2246.e5e65a4f.chunk.js.map
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internal component.\\n */\\nimport { jsx as _jsx } from \\"react/jsx-runtime\\";\\nexport default createSvgIcon(/*#__PURE__*/_jsx(\\"path\\", {\\n d: \\"M12 0a12 12 0 1 0 0 24 12 12 0 0 0 0-24zm-2 17l-5-5 1.4-1.4 3.6 3.6 7.6-7.6L19 8l-9 9z\\"\\n}), \'CheckCircle\');","\'use client\';\\n\\nimport * as React from \'react\';\\nimport createSvgIcon from \\"../../utils/createSvgIcon.js\\";\\n\\n/**\\n * @ignore - internal component.\\n */\\nimport { jsx as _jsx } from \\"react/jsx-runtime\\";\\nexport default createSvgIcon(/*#__PURE__*/_jsx(\\"path\\", {\\n d: \\"M1 21h22L12 2 1 21zm12-3h-2v-2h2v2zm0-4h-2v-4h2v4z\\"\\n}), \'Warning\');","\'use client\';\\n\\nvar _circle;\\nimport * as React from \'react\';\\nimport PropTypes from \'prop-types\';\\nimport clsx from \'clsx\';\\nimport composeClasses from \'@mui/utils/composeClasses\';\\nimport { styled } from \\"../zero-styled/index.js\\";\\nimport memoTheme from \\"../utils/memoTheme.js\\";\\nimport { useDefaultProps } from \\"../DefaultPropsProvider/index.js\\";\\nimport CheckCircle from \\"../internal/svg-icons/CheckCircle.js\\";\\nimport Warning from \\"../internal/svg-icons/Warning.js\\";\\nimport SvgIcon from \\"../SvgIcon/index.js\\";\\nimport stepIconClasses, { getStepIconUtilityClass } from \\"./stepIconClasses.js\\";\\nimport { jsx as _jsx, jsxs as _jsxs } from \\"react/jsx-runtime\\";\\nconst useUtilityClasses = ownerState => {\\n const {\\n classes,\\n active,\\n completed,\\n error\\n } = ownerState;\\n const slots = {\\n root: [\'root\', active && \'active\', completed && \'completed\', error && \'error\'],\\n text: [\'text\']\\n };\\n return composeClasses(slots, getStepIconUt'..b'n completed = false,\\n error = false,\\n icon,\\n ...other\\n } = props;\\n const ownerState = {\\n ...props,\\n active,\\n completed,\\n error\\n };\\n const classes = useUtilityClasses(ownerState);\\n if (typeof icon === \'number\' || typeof icon === \'string\') {\\n const className = clsx(classNameProp, classes.root);\\n if (error) {\\n return /*#__PURE__*/_jsx(StepIconRoot, {\\n as: Warning,\\n className: className,\\n ref: ref,\\n ownerState: ownerState,\\n ...other\\n });\\n }\\n if (completed) {\\n return /*#__PURE__*/_jsx(StepIconRoot, {\\n as: CheckCircle,\\n className: className,\\n ref: ref,\\n ownerState: ownerState,\\n ...other\\n });\\n }\\n return /*#__PURE__*/_jsxs(StepIconRoot, {\\n className: className,\\n ref: ref,\\n ownerState: ownerState,\\n ...other,\\n children: [_circle || (_circle = /*#__PURE__*/_jsx(\\"circle\\", {\\n cx: \\"12\\",\\n cy: \\"12\\",\\n r: \\"12\\"\\n })), /*#__PURE__*/_jsx(StepIconText, {\\n className: classes.text,\\n x: \\"12\\",\\n y: \\"12\\",\\n textAnchor: \\"middle\\",\\n dominantBaseline: \\"central\\",\\n ownerState: ownerState,\\n children: icon\\n })]\\n });\\n }\\n return icon;\\n});\\nprocess.env.NODE_ENV !== \\"production\\" ? 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2249.b91f0bb3.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2249.b91f0bb3.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2249.b91f0bb3.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2249.b91f0bb3.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2306.f8d640f4.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2306.f8d640f4.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2306.f8d640f4.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2306.f8d640f4.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/2321.ef211da9.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2321.ef211da9.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2398.731eb1c6.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2412.10574f7d.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2412.10574f7d.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2418.0b1f308b.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2418.0b1f308b.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2424.7cd6703f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2424.7cd6703f.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2424.7cd6703f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2424.7cd6703f.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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(\n <BlockMsg\n message={`${error}`}\n severity=\"error\"\n action={\n <Tooltip title=\"Reload\">\n <Button\n data-testid=\"reload_button\"\n onClick={() => {\n model.reload()\n }}\n >\n Reload\n </Button>\n </Tooltip>\n }\n />\n ) : regionTooLarge ? (\n model.regionCannotBeRendered()\n ) : (\n <DataDisplay model={model}>{children}</DataDisplay>\n )\n})\n\nconst DataDisplay = observer(function ({\n model,\n children,\n}: {\n model: LinearReadArcsDisplayModel | LinearReadCloudDisplayModel\n children?: React.ReactNode\n}) {\n const { drawn, loading } = model\n const view = getContainingView(model) as LinearGenomeViewModel\n const left = (model.lastDrawnOffsetPx || 0) - view.offsetPx\n return (\n // this data-testid is located here because changing props on the canvas\n // itself is very sensitive to triggering ref invalidation\n <div data-testid={`drawn-${drawn}`}>\n <div style={{ position: 'absolute', left }}>{children}</div>\n {left !== 0 || loading ? <LoadingBar model={model} /> : null}\n </div>\n )\n})\n\nconst LoadingBar = observer(function ({\n model,\n}: {\n model: LinearReadArcsDisplayModel | LinearReadCloudDisplayModel\n}) {\n const { classes } = useStyles()\n const { message } = model\n return (\n <div className={classes.loading}>\n <LoadingEllipses message={message} />\n </div>\n )\n})\n\nexport default BaseDisplayComponent\n"],"names":["Arcs","observer","model","view","getContainingView","width","Math","round","dynamicBlocks","totalWidthPx","height","cb","useCallback","ref","setRef","React","style","position","BaseDisplayComponent","useStyles","makeStyles","theme","loading","backgroundColor","palette","background","default","backgroundImage","action","disabledBackground","bottom","right","pointerEvents","textAlign","children","error","regionTooLarge","BlockMsg","message","severity","Tooltip","title","Button","onClick","reload","regionCannotBeRendered","DataDisplay","drawn","left","lastDrawnOffsetPx","offsetPx","LoadingBar","classes","className","LoadingEllipses"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/246.9848bd41.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/246.9848bd41.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,29 @@
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+  0% {
+    transform: rotate(0deg);
+  }
+
+  100% {
+    transform: rotate(360deg);
+  }
+`,f=o.i7`
+  0% {
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+    stroke-dashoffset: 0;
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+
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+    stroke-dashoffset: -125px;
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+        animation: ${v} 1.4s linear infinite;
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+        animation: ${f} 1.4s ease-in-out infinite;
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+//# sourceMappingURL=246.9848bd41.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/246.9848bd41.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/246.9848bd41.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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flex item properties to be used to lay out the children.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * If `true`, disables gutter padding.\\n * @default false\\n */\\n disableGutters: PropTypes.bool,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * The variant to use.\\n * @default \'regular\'\\n */\\n variant: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'dense\', \'regular\']), PropTypes.string])\\n} : void 0;\\nexport default Toolbar;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getToolbarUtilityClass(slot) {\\n return generateUtilityClass(\'MuiToolbar\', slot);\\n}\\nconst toolbarClasses = generateUtilityClasses(\'MuiToolbar\', [\'root\', \'gutters\', \'regular\', \'dense\']);\\nexport default 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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/2493.20e8e76c.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2493.20e8e76c.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2583.db78b17f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2583.db78b17f.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/26.604133d9.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/26.604133d9.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2627.300bea43.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2627.300bea43.chunk.js Sat Oct 05 23:58:05 2024 +0000

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+  0% {
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+
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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flex item properties to be used to lay out the children.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * If `true`, disables gutter padding.\\n * @default false\\n */\\n disableGutters: PropTypes.bool,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * The variant to use.\\n * @default \'regular\'\\n */\\n variant: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'dense\', \'regular\']), PropTypes.string])\\n} : void 0;\\nexport default Toolbar;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getToolbarUtilityClass(slot) {\\n return generateUtilityClass(\'MuiToolbar\', slot);\\n}\\nconst toolbarClasses = generateUtilityClasses(\'MuiToolbar\', [\'root\', \'gutters\', \'regular\', \'dense\']);\\nexport default toolbarClasses;"],"names":["circularRotateKeyframe","circularDashKeyframe","rotateAnimation","dashAnimation","CircularProgressRoot","name","slot","overridesResolver","props","styles","ownerState","root","variant","color","theme","display","variants","style","transition","transitions","create","animation","Object","entries","palette","filter","map","vars","main","CircularProgressSVG","svg","CircularProgressCircle","circle","disableShrink","circleDisableShrink","stroke","strokeDasharray","strokeDashoffset","inProps","ref","className","size","thickness","value","other","classes","slots","useUtilityClasses","circleStyle","rootStyle","rootProps","circumference","Math","PI","toFixed","round","transform","width","height","role","children","viewBox","cx","cy","r","fill","strokeWidth","getCircularProgressUtilityClass","mapEventPropToEvent","eventProp","substring","toLowerCase","ClickAwayListener","disableReactTree","mouseEvent","onClickAway","touchEvent","movedRef","nodeRef","activatedRef","syntheticEventRef","setTimeout","current","handleRef","handleClickAway","event","insideReactTree","doc","documentElement","clientWidth","clientX","clientHeight","clientY","clickedRootScrollbar","insideDOM","composedPath","includes","contains","target","createHandleSynthetic","handlerName","childrenPropsHandler","childrenProps","mappedTouchEvent","handleTouchMove","addEventListener","removeEventListener","mappedMouseEvent","ToolbarRoot","disableGutters","gutters","position","alignItems","paddingLeft","spacing","paddingRight","breakpoints","up","minHeight","mixins","toolbar","component","as","getToolbarUtilityClass"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/2645.4b79a04c.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2645.4b79a04c.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2645.4b79a04c.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/266.94eb2bf9.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/266.94eb2bf9.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2697.4ab94d07.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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Lowercase<EventName> : never` once generatePropTypes runs with TS 4.1\\nimport { jsx as _jsx } from \\"react/jsx-runtime\\";\\nfunction mapEventPropToEvent(eventProp) {\\n return eventProp.substring(2).toLowerCase();\\n}\\nfunction clickedRootScrollbar(event, doc) {\\n return doc.documentElement.clientWidth < event.clientX || doc.documentElement.clientHeight < event.clientY;\\n}\\n/**\\n * Listen for click events that occur somewhere in the document, outside of the element itself.\\n * For instance, if you need to hide a menu when people click anywhere else on your page.\\n *\\n * Demos:\\n *\\n * - [Click-Away Listener](https://mui.com/material-ui/react-click-away-listener/)\\n * - [Menu](https://mui.com/material-ui/react-menu/)\\n *\\n * API:\\n *\\n * - [ClickAwayListener API](https://mui.com/material-ui/api/click-away-listener/)\\n */\\nfunction ClickAwayListener(props) {\\n const {\\n children,\\n disableReactTree = false,\\n mouseEvent = \'onClick\',\\n onClickAway,\\n touchEvent = \'onTouchEnd\'\\n } = props;\\n const movedRef = React.useRef(false);\\n const nodeRef = React.useRef(null);\\n const activatedRef = React.useRef(false);\\n const syntheticEventRef = React.useRef(false);\\n React.useEffect(() => {\\n // Ensure that this component is not \\"activated\\" synchronously.\\n // https://github.com/facebook/react/issues/20074\\n setTimeout(() => {\\n activatedRef.current = true;\\n }, 0);\\n return () => {\\n activatedRef.current = false;\\n };\\n }, []);\\n const handleRef = useForkRef(getReactNodeRef(children), nodeRef);\\n\\n // The handler doesn\'t take event.defaultPrevented into account:\\n //\\n // event.preventDefault() is meant to stop default behaviors like\\n // clicking a checkbox to check it, hitting a button to submit a form,\\n // and hitting left arrow to move the cursor in a text input etc.\\n /'..b'urrent = true;\\n const childrenPropsHandler = children.props[handlerName];\\n if (childrenPropsHandler) {\\n childrenPropsHandler(event);\\n }\\n };\\n const childrenProps = {\\n ref: handleRef\\n };\\n if (touchEvent !== false) {\\n childrenProps[touchEvent] = createHandleSynthetic(touchEvent);\\n }\\n React.useEffect(() => {\\n if (touchEvent !== false) {\\n const mappedTouchEvent = mapEventPropToEvent(touchEvent);\\n const doc = ownerDocument(nodeRef.current);\\n const handleTouchMove = () => {\\n movedRef.current = true;\\n };\\n doc.addEventListener(mappedTouchEvent, handleClickAway);\\n doc.addEventListener(\'touchmove\', handleTouchMove);\\n return () => {\\n doc.removeEventListener(mappedTouchEvent, handleClickAway);\\n doc.removeEventListener(\'touchmove\', handleTouchMove);\\n };\\n }\\n return undefined;\\n }, [handleClickAway, touchEvent]);\\n if (mouseEvent !== false) {\\n childrenProps[mouseEvent] = createHandleSynthetic(mouseEvent);\\n }\\n React.useEffect(() => {\\n if (mouseEvent !== false) {\\n const mappedMouseEvent = mapEventPropToEvent(mouseEvent);\\n const doc = ownerDocument(nodeRef.current);\\n doc.addEventListener(mappedMouseEvent, handleClickAway);\\n return () => {\\n doc.removeEventListener(mappedMouseEvent, handleClickAway);\\n };\\n }\\n return undefined;\\n }, [handleClickAway, mouseEvent]);\\n return /*#__PURE__*/_jsx(React.Fragment, {\\n children: /*#__PURE__*/React.cloneElement(children, childrenProps)\\n });\\n}\\nprocess.env.NODE_ENV !== \\"production\\" ? ClickAwayListener.propTypes /* remove-proptypes */ = {\\n // \xe2\x94\x8c\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80 Warning \xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x90\\n // \xe2\x94\x82 These PropTypes are generated from the TypeScript type definitions. \xe2\x94\x82\\n // \xe2\x94\x82 To update them, edit the TypeScript types and run `pnpm proptypes`. \xe2\x94\x82\\n // \xe2\x94\x94\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x98\\n /**\\n * The wrapped element.\\n */\\n children: elementAcceptingRef.isRequired,\\n /**\\n * If `true`, the React tree is ignored and only the DOM tree is considered.\\n * This prop changes how portaled elements are handled.\\n * @default false\\n */\\n disableReactTree: PropTypes.bool,\\n /**\\n * The mouse event to listen to. You can disable the listener by providing `false`.\\n * @default \'onClick\'\\n */\\n mouseEvent: PropTypes.oneOf([\'onClick\', \'onMouseDown\', \'onMouseUp\', \'onPointerDown\', \'onPointerUp\', false]),\\n /**\\n * Callback fired when a \\"click away\\" event is detected.\\n */\\n onClickAway: PropTypes.func.isRequired,\\n /**\\n * The touch event to listen to. You can disable the listener by providing `false`.\\n * @default \'onTouchEnd\'\\n */\\n touchEvent: PropTypes.oneOf([\'onTouchEnd\', \'onTouchStart\', false])\\n} : void 0;\\nif (process.env.NODE_ENV !== \'production\') {\\n // eslint-disable-next-line\\n ClickAwayListener[\'propTypes\' + \'\'] = exactProp(ClickAwayListener.propTypes);\\n}\\nexport { ClickAwayListener };"],"names":["mapEventPropToEvent","eventProp","substring","toLowerCase","ClickAwayListener","props","children","disableReactTree","mouseEvent","onClickAway","touchEvent","movedRef","nodeRef","activatedRef","syntheticEventRef","setTimeout","current","handleRef","handleClickAway","event","insideReactTree","doc","documentElement","clientWidth","clientX","clientHeight","clientY","clickedRootScrollbar","insideDOM","composedPath","includes","contains","target","createHandleSynthetic","handlerName","childrenPropsHandler","childrenProps","ref","mappedTouchEvent","handleTouchMove","addEventListener","removeEventListener","mappedMouseEvent"],"sourceRoot":""}\n\\ No newline at end of file\n'

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IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS\\n * BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN\\n * ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN\\n * CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE\\n * SOFTWARE.\\n */\\n\\nexport function paf_delta2paf(buffer: Buffer) {\\n let rname = \'\'\\n let qname '..b'hile (blockStart < buffer.length) {\\n const n = buffer.indexOf(\'\\\\n\', blockStart)\\n if (n === -1) {\\n break\\n }\\n const b = buffer.subarray(blockStart, n)\\n const line = (decoder?.decode(b) || b.toString()).trim()\\n blockStart = n + 1\\n i++\\n if (line) {\\n const m = regex.exec(line)\\n if (m !== null) {\\n rname = m[1]!\\n qname = m[2]!\\n seen_gt = true\\n continue\\n }\\n if (!seen_gt) {\\n continue\\n }\\n const t = line.split(\' \')\\n if (t.length === 7) {\\n const t0 = +t[0]!\\n const t1 = +t[1]!\\n const t2 = +t[2]!\\n const t3 = +t[3]!\\n const t4 = +t[4]!\\n strand = (t0 < t1 && t2 < t3) || (t0 > t1 && t2 > t3) ? 1 : -1\\n rs = +(t0 < t1 ? t0 : t1) - 1\\n re = +(t1 > t0 ? t1 : t0)\\n qs = +(t2 < t3 ? t2 : t3) - 1\\n qe = +(t3 > t2 ? t3 : t2)\\n x = y = 0\\n NM = t4\\n cigar = []\\n } else if (t.length === 1) {\\n const d = +t[0]!\\n if (d === 0) {\\n let blen = 0\\n const cigar_str = []\\n\\n if (re - rs - x !== qe - qs - y) {\\n throw new Error(`inconsistent alignment on line ${i}`)\\n }\\n cigar.push((re - rs - x) << 4)\\n for (const entry of cigar) {\\n const rlen = entry >> 4\\n blen += rlen\\n cigar_str.push(rlen + \'MID\'.charAt(cigar[i]! & 0xf))\\n }\\n\\n records.push({\\n qname,\\n qstart: qs,\\n qend: qe,\\n tname: rname,\\n tstart: rs,\\n tend: re,\\n strand,\\n extra: {\\n numMatches: blen - NM,\\n blockLen: blen,\\n mappingQual: 0,\\n NM,\\n cg: cigar_str.join(\'\'),\\n },\\n })\\n } else if (d > 0) {\\n const l = d - 1\\n x += l + 1\\n y += l\\n if (l > 0) {\\n cigar.push(l << 4)\\n }\\n\\n if (cigar.length > 0 && (cigar[cigar.length - 1]! & 0xf) === 2) {\\n cigar[cigar.length - 1]! += 1 << 4\\n } else {\\n cigar.push((1 << 4) | 2)\\n } // deletion\\n } else {\\n const l = -d - 1\\n x += l\\n y += l + 1\\n if (l > 0) {\\n cigar.push(l << 4)\\n }\\n\\n if (cigar.length > 0 && (cigar[cigar.length - 1]! & 0xf) === 1) {\\n cigar[cigar.length - 1]! += 1 << 4\\n } else {\\n cigar.push((1 << 4) | 1)\\n } // insertion\\n }\\n }\\n }\\n }\\n return records\\n}\\n","import { BaseOptions } from \'@jbrowse/core/data_adapters/BaseAdapter\'\\nimport { openLocation } from \'@jbrowse/core/util/io\'\\nimport { unzip } from \'@gmod/bgzf-filehandle\'\\nimport { isGzip } from \'@jbrowse/core/util\'\\nimport type { Buffer } from \'buffer\'\\n// locals\\nimport PAFAdapter from \'../PAFAdapter/PAFAdapter\'\\nimport { paf_delta2paf } from \'./util\'\\n\\nexport default class DeltaAdapter extends PAFAdapter {\\n async setupPre(opts?: BaseOptions) {\\n const loc = openLocation(this.getConf(\'deltaLocation\'), this.pluginManager)\\n const buffer = (await loc.readFile(opts)) as Buffer\\n const buf = isGzip(buffer) ? await unzip(buffer) : buffer\\n return paf_delta2paf(buf)\\n }\\n}\\n"],"names":["decoder","TextDecoder","undefined","DeltaAdapter","PAFAdapter","setupPre","opts","loc","openLocation","this","getConf","pluginManager","buffer","readFile","rname","qname","qs","qe","rs","re","strand","NM","cigar","x","y","seen_gt","records","regex","RegExp","blockStart","i","length","n","indexOf","b","subarray","line","decode","toString","trim","m","exec","t","split","t0","t1","t2","t3","d","blen","cigar_str","Error","push","entry","rlen","charAt","qstart","qend","tname","tstart","tend","extra","numMatches","blockLen","mappingQual","cg","join","l","paf_delta2paf","isGzip","unzip"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/2847.009c96ee.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2847.009c96ee.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2847.009c96ee.chunk.js.LICENSE.txt
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2847.009c96ee.chunk.js.LICENSE.txt Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,6 @@
+/*!
+ * The buffer module from node.js, for the browser.
+ *
+ * @author Feross Aboukhadijeh <feross@feross.org> <http://feross.org>
+ * @license MIT
+ */

diff -r 137e08517410 -r 49f3d3878413 x/static/js/2847.009c96ee.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2861.aa6cd5b7.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2872.5129bbd8.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2872.5129bbd8.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2885.8a30e856.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2885.8a30e856.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2885.8a30e856.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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be unique within the page.\\n * Being unique within a form is insufficient since the `name` is used to generated IDs.\\n */\\n name: PropTypes.string,\\n /**\\n * Callback fired when the value changes.\\n * @param {React.SyntheticEvent} event The event source of the callback.\\n * @param {number|null} value The new value.\\n */\\n onChange: PropTypes.func,\\n /**\\n * Callback function that is fired when the hover state changes.\\n * @param {React.SyntheticEvent} event The event source of the callback.\\n * @param {number} value The new value.\\n */\\n onChangeActive: PropTypes.func,\\n /**\\n * @ignore\\n */\\n onMouseLeave: PropTypes.func,\\n /**\\n * @ignore\\n */\\n onMouseMove: PropTypes.func,\\n /**\\n * The minimum increment value change allowed.\\n * @default 1\\n */\\n precision: chainPropTypes(PropTypes.number, props => {\\n if (props.precision < 0.1) {\\n return new Error([\'MUI: The prop `precision` should be above 0.1.\', \'A value below this limit has an imperceptible 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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/2928.4ac8c386.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2928.4ac8c386.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2928.4ac8c386.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2928.4ac8c386.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2968.4d90773a.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2968.4d90773a.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2968.4d90773a.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2968.4d90773a.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2977.aa562b03.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2977.aa562b03.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

b'@@ -0,0 +1,2 @@\n+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[2977,7706],{47046:(e,t,a)=>{a.d(t,{A:()=>i});class r{}class n{constructor(){this.signals=new Set,this.abortController=new AbortController}addSignal(e=new r){if(this.signal.aborted)throw new Error("cannot add a signal, already aborted!");this.signals.add(e),e.aborted?this.handleAborted(e):"function"==typeof e.addEventListener&&e.addEventListener("abort",(()=>{this.handleAborted(e)}))}handleAborted(e){this.signals.delete(e),0===this.signals.size&&this.abortController.abort()}get signal(){return this.abortController.signal}abort(){this.abortController.abort()}}class s{constructor(){this.callbacks=new Set}addCallback(e=()=>{}){this.callbacks.add(e),e(this.currentMessage)}callback(e){this.currentMessage=e;for(const t of this.callbacks)t(e)}}class i{constructor({fill:e,cache:t}){if("function"!=typeof e)throw new TypeError("must pass a fill function");if("object"!=typeof t)throw new TypeError("must pass a cache object");if("function"!=typeof t.get||"function"!=typeof t.set||"function"!=typeof t.delete)throw new TypeError("cache must implement get(key), set(key, val), and and delete(key)");this.cache=t,this.fillCallback=e}static isAbortException(e){return"AbortError"===e.name||"ERR_ABORTED"===e.code||"AbortError: aborted"===e.message||"Error: aborted"===e.message}evict(e,t){this.cache.get(e)===t&&this.cache.delete(e)}fill(e,t,a,r){const i=new n,o=new s;o.addCallback(r);const l={aborter:i,promise:this.fillCallback(t,i.signal,(e=>{o.callback(e)})),settled:!1,statusReporter:o,get aborted(){return this.aborter.signal.aborted}};l.aborter.addSignal(a),l.aborter.signal.addEventListener("abort",(()=>{l.settled||this.evict(e,l)})),l.promise.then((()=>{l.settled=!0}),(()=>{l.settled=!0,this.evict(e,l)})).catch((e=>{throw console.error(e),e})),this.cache.set(e,l)}static checkSinglePromise(e,t){function a(){if(null==t?void 0:t.aborted)throw Object.assign(new Error("aborted"),{code:"ERR_ABORTED"})}return e.then((e=>(a(),e)),(e=>{throw a(),e}))}has(e){return this.cache.has(e)}get(e,t,a,r){if(!a&&t instanceof AbortSignal)throw new TypeError("second get argument appears to be an AbortSignal, perhaps you meant to pass `null` for the fill data?");const n=this.cache.get(e);return n?n.aborted&&!n.settled?(this.evict(e,n),this.get(e,t,a,r)):n.settled?n.promise:(n.aborter.addSignal(a),n.statusReporter.addCallback(r),i.checkSinglePromise(n.promise,a)):(this.fill(e,t,a,r),i.checkSinglePromise(this.cache.get(e).promise,a))}delete(e){const t=this.cache.get(e);t&&(t.settled||t.aborter.abort(),this.cache.delete(e))}clear(){const e=this.cache.keys();let t=0;for(let a=e.next();!a.done;a=e.next())this.delete(a.value),t+=1;return t}}},7706:(e,t,a)=>{a.d(t,{sG:()=>d,unzip:()=>i,i2:()=>o});var r=a(35451),n=a(45834),s=a(57864);async function i(e){try{let t,a=0,n=0;const i=[];let o,l=0;do{const r=e.subarray(a);if(o=new 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2977.aa562b03.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2977.aa562b03.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/2989.031b43a0.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/2989.031b43a0.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3003.0f0cbacd.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3011.9da53e7c.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3012.9940fd01.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3012.9940fd01.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3106.e1981605.chunk.js.map
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/>\\n */\\n icon: PropTypes.node,\\n /**\\n * The id of the `input` element.\\n */\\n id: PropTypes.string,\\n /**\\n * [Attributes](https://developer.mozilla.org/en-US/docs/Web/HTML/Element/input#Attributes) applied to the `input` element.\\n */\\n inputProps: PropTypes.object,\\n /**\\n * Pass a ref to the `input` element.\\n */\\n inputRef: refType,\\n /**\\n * Name attribute of the `input` element.\\n */\\n name: PropTypes.string,\\n /**\\n * Callback fired when the state is changed.\\n *\\n * @param {React.ChangeEvent<HTMLInputElement>} event The event source of the callback.\\n * You can pull out the new value by accessing `event.target.value` (string).\\n * You can pull out the new checked state by accessing `event.target.checked` (boolean).\\n */\\n onChange: PropTypes.func,\\n /**\\n * If `true`, the `input` element is required.\\n * @default false\\n */\\n required: PropTypes.bool,\\n /**\\n * The size of the component.\\n * `small` is equivalent to the dense radio 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3109.3173f682.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3109.3173f682.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3109.3173f682.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/311.2c004784.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/311.2c004784.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/311.2c004784.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/311.2c004784.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3116.fa0100fd.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3116.fa0100fd.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3116.fa0100fd.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3116.fa0100fd.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3120.3940249f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3120.3940249f.chunk.js Sat Oct 05 23:58:05 2024 +0000

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sourceMappingURL=3162.eb9bf76d.chunk.js.map\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3162.eb9bf76d.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3162.eb9bf76d.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3167.312d0953.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3167.312d0953.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3167.312d0953.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3167.312d0953.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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-1 : 1,\\n },\\n ]\\n }),\\n )\\n}\\n\\nexport async function readFile(file: GenericFilehandle, opts?: BaseOptions) {\\n const buffer = (await file.readFile(opts)) as Buffer\\n return new TextDecoder(\'utf8\', { fatal: true }).decode(\\n isGzip(buffer) ? await unzip(buffer) : buffer,\\n )\\n}\\n\\nexport function zip(a: number[], b: number[]) {\\n return a.map((e, i) => [e, b[i]] as [number, number])\\n}\\n\\nconst decoder =\\n typeof TextDecoder !== \'undefined\' ? new TextDecoder(\'utf8\') : undefined\\n\\nexport function parseLineByLine(\\n buffer: Buffer,\\n cb: (line: string) => PAFRecord,\\n) {\\n let blockStart = 0\\n const entries = []\\n while (blockStart < buffer.length) {\\n const n = buffer.indexOf(\'\\\\n\', blockStart)\\n if (n === -1) {\\n break\\n }\\n const b = buffer.subarray(blockStart, n)\\n const line = (decoder?.decode(b) || b.toString()).trim()\\n if (line) {\\n entries.push(cb(line))\\n }\\n\\n blockStart = n + 1\\n }\\n return entries\\n}\\n\\nexport function parsePAFLine(line: string) {\\n const [\\n qname,\\n ,\\n qstart,\\n qend,\\n strand,\\n tname,\\n ,\\n tstart,\\n tend,\\n numMatches,\\n blockLen,\\n mappingQual,\\n ...fields\\n ] = line.split(\'\\\\t\')\\n\\n const rest = Object.fromEntries(\\n fields.map(field => {\\n const r = field.indexOf(\':\')\\n const fieldName = field.slice(0, r)\\n const fieldValue = field.slice(r + 3)\\n return [fieldName, fieldValue]\\n }),\\n )\\n\\n return {\\n tname,\\n tstart: +tstart!,\\n tend: +tend!,\\n qname,\\n qstart: +qstart!,\\n qend: +qend!,\\n strand: strand === \'-\' ? -1 : 1,\\n extra: {\\n numMatches: +numMatches!,\\n blockLen: +blockLen!,\\n mappingQual: +mappingQual!,\\n ...rest,\\n },\\n } as PAFRecord\\n}\\n\\nexport function flipCigar(cigar: string[]) {\\n const arr = []\\n for (let i = cigar.length - 2; i >= 0; i -= 2) {\\n arr.push(cigar[i])\\n const op = cigar[i + 1]\\n if (op === \'D\') {\\n arr.push(\'I\')\\n } else if (op === \'I\') {\\n arr.push(\'D\')\\n } else {\\n arr.push(op)\\n }\\n }\\n return arr\\n}\\n\\nexport function swapIndelCigar(cigar: string) {\\n return cigar.replaceAll(\'D\', \'K\').replaceAll(\'I\', \'D\').replaceAll(\'K\', \'I\')\\n}\\n"],"names":["PAFAdapter","BaseFeatureDataAdapter","constructor","config","getSubAdapter","pluginManager","super","pifGzLoc","this","getConf","type","loc","pm","pif","TabixIndexedFile","filehandle","openLocation","csiFilehandle","undefined","tbiFilehandle","chunkCacheSize","getHeader","getAssemblyNames","assemblyNames","length","hasDataForRefName","getRefNames","opts","r1","regions","assemblyName","Error","idx","indexOf","names","getReferenceSequenceNames","filter","n","startsWith","map","slice","getFeatures","query","ObservableCreate","async","flip","letter","getLines","refName","start","end","lineCallback","line","fileOffset","r","parsePAFLine","qname","qstart","qend","mateName","tname","mateStart","tstart","mateEnd","tend","extra","strand","numMatches","blockLen","cg","rest","observer","next","SyntenyFeature","uniqueId","CIGAR","syntenyId","identity","mate","signal","complete","freeResources","getMismatches","MismatchParser","SimpleFeature","get","arg","parseBed","text","Map","split","f","name","score","readFile","file","buffer","TextDecoder","fatal","decode","isGzip","unzip","zip","a","b","e","i","decoder","parseLineByLine","cb","blockStart","entries","subarray","toString","trim","push","mappingQual","fields","Object","fromEntries","field","flipCigar","cigar","arr","op","swapIndelCigar","replaceAll"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3175.af2c93a5.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3175.af2c93a5.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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+//# sourceMappingURL=3175.af2c93a5.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3175.af2c93a5.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3175.af2c93a5.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3199.a36b17a7.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3199.a36b17a7.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3274.053c3df5.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3274.053c3df5.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3274.053c3df5.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3274.053c3df5.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3301.db457761.chunk.js.LICENSE.txt
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3301.db457761.chunk.js.LICENSE.txt Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,71 @@
+/*! *****************************************************************************
+Copyright (c) Microsoft Corporation.
+
+Permission to use, copy, modify, and/or distribute this software for any
+purpose with or without fee is hereby granted.
+
+THE SOFTWARE IS PROVIDED "AS IS" AND THE AUTHOR DISCLAIMS ALL WARRANTIES WITH
+REGARD TO THIS SOFTWARE INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY
+AND FITNESS. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY SPECIAL, DIRECT,
+INDIRECT, OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM
+LOSS OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE OR
+OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE OR
+PERFORMANCE OF THIS SOFTWARE.
+***************************************************************************** */
+
+/**
+ * @license React
+ * react-dom.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/**
+ * @license React
+ * react-jsx-runtime.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/**
+ * @license React
+ * react.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/**
+ * @license React
+ * scheduler.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/**
+ * @mui/styled-engine v6.1.1
+ *
+ * @license MIT
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/** @license React v16.13.1
+ * react-is.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3301.db457761.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3304.65e5d8dd.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3304.65e5d8dd.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3304.65e5d8dd.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3304.65e5d8dd.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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n\\n}\\n\\ninterface CoreFeat {\\n stra'..b') * 10},50%,50%)`\\n }\\n } else {\\n if (type === \'orientation\' || type === \'insertSizeAndOrientation\') {\\n if (s1 === -1 && s2 === 1) {\\n ctx.strokeStyle = \'navy\'\\n } else if (s1 === 1 && s2 === -1) {\\n ctx.strokeStyle = \'green\'\\n } else {\\n ctx.strokeStyle = \'grey\'\\n }\\n } else if (type === \'gradient\') {\\n ctx.strokeStyle = `hsl(${Math.log10(absrad) * 10},50%,50%)`\\n }\\n }\\n }\\n\\n const destX = p + radius * 2\\n const destY = Math.min(height + jitter(jitterVal), absrad)\\n if (longRange) {\\n // avoid drawing gigantic circles that glitch out the rendering,\\n // instead draw vertical lines\\n if (absrad > 100_000) {\\n drawLineAtOffset(ctx, p + jitter(jitterVal), height, \'red\')\\n drawLineAtOffset(ctx, p2 + jitter(jitterVal), height, \'red\')\\n } else if (drawArcInsteadOfBezier) {\\n ctx.arc(p + radius + jitter(jitterVal), 0, absrad, 0, Math.PI)\\n ctx.stroke()\\n } else {\\n ctx.bezierCurveTo(\\n p + jitter(jitterVal),\\n destY,\\n destX,\\n destY,\\n destX + jitter(jitterVal),\\n 0,\\n )\\n ctx.stroke()\\n }\\n } else {\\n ctx.bezierCurveTo(\\n p + jitter(jitterVal),\\n destY,\\n destX,\\n destY,\\n destX + jitter(jitterVal),\\n 0,\\n )\\n ctx.stroke()\\n }\\n } else if (r1 && drawInter) {\\n drawLineAtOffset(ctx, r1 - view.offsetPx, height, \'purple\')\\n }\\n }\\n\\n for (const chain of chains) {\\n // chain.length === 1, singleton (other pairs/mates not in view)\\n if (chain.length === 1 && drawLongRange) {\\n const f = chain[0]!\\n if (hasPaired && !(f.flags & 8)) {\\n const mate = {\\n refName: f.next_ref || \'\',\\n start: f.next_pos || 0,\\n end: f.next_pos || 0,\\n strand: f.strand,\\n }\\n draw(f, mate, asm, true)\\n } else {\\n const features = [f, ...featurizeSA(f.SA, f.id, f.strand, f.name)].sort(\\n (a, b) => a.clipPos - b.clipPos,\\n )\\n for (let i = 0; i < features.length - 1; i++) {\\n const f = features[i]!\\n const v1 = features[i + 1]!\\n draw(f, v1, asm, true)\\n }\\n }\\n } else {\\n const res = hasPaired\\n ? chain.filter(f => !(f.flags & 2048) && !(f.flags & 8))\\n : chain\\n .sort((a, b) => a.clipPos - b.clipPos)\\n .filter(f => !(f.flags & 256))\\n for (let i = 0; i < res.length - 1; i++) {\\n draw(res[i]!, res[i + 1]!, asm, false)\\n }\\n }\\n }\\n}\\n","import { ChainData } from \'./fetchChains\'\\n\\nexport function hasPairedReads(features: ChainData) {\\n for (const f of features.chains.values()) {\\n if (f[0]!.flags & 1) {\\n return true\\n }\\n }\\n return false\\n}\\n"],"names":["jitter","n","Math","random","drawLineAtOffset","ctx","offset","height","color","strokeStyle","beginPath","moveTo","lineTo","stroke","drawFeats","self","width","chainData","colorBy","drawInter","drawLongRange","lineWidthSetting","jitterVal","view","getContainingView","assemblyManager","getSession","chains","stats","hasPaired","hasPairedReads","asm","get","assemblyNames","type","lineWidth","chain","length","f","flags","features","featurizeSA","SA","id","strand","name","sort","a","b","clipPos","i","draw","refName","next_ref","start","next_pos","end","res","filter","k1","k2","assembly","longRange","s1","s2","f2","p1","p2","ra1","getCanonicalRefName","ra2","r1","bpToPx","coord","offsetPx","r2","undefined","radius","absrad","abs","p","drawArcInsteadOfBezier","getPairedInsertSizeAndOrientationColor","getPairedOrientationColor","getPairedInsertSizeColor","log10","destX","destY","min","arc","PI","bezierCurveTo","values"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3311.92fac4a6.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3311.92fac4a6.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3311.92fac4a6.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3311.92fac4a6.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3368.6e9b017b.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3368.6e9b017b.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3384.e146a796.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3384.e146a796.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3384.e146a796.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3384.e146a796.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3416.f7c72cbe.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3416.f7c72cbe.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3416.f7c72cbe.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3425.be85a6ad.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3425.be85a6ad.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3425.be85a6ad.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3474.8c1888be.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3474.8c1888be.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3497.9db6611b.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3497.9db6611b.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3497.9db6611b.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3497.9db6611b.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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tags[tag] : feature.get(tag)\n}\n\n// use fallback alt tag, used in situations where upper case/lower case tags\n// exist e.g. Mm/MM for base modifications\nexport function getTagAlt(feature: Feature, tag: string, alt: string) {\n return getTag(feature, tag) ?? getTag(feature, alt)\n}\n\n// orientation definitions from igv.js, see also\n// https://software.broadinstitute.org/software/igv/interpreting_pair_orientations\nexport const orientationTypes = {\n fr: {\n F1R2: 'LR',\n F2R1: 'LR',\n\n F1F2: 'LL',\n F2F1: 'LL',\n\n R1R2: 'RR',\n R2R1: 'RR',\n\n R1F2: 'RL',\n R2F1: 'RL',\n } as Record<string, string>,\n\n rf: {\n R1F2: 'LR',\n R2F1: 'LR',\n\n R1R2: 'LL',\n R2R1: 'LL',\n\n F1F2: 'RR',\n F2F1: 'RR',\n\n F1R2: 'RL',\n F2R1: 'RL',\n } as Record<string, string>,\n\n ff: {\n F2F1: 'LR',\n R1R2: 'LR',\n\n F2R1: 'LL',\n R1F2: 'LL',\n\n R2F1: 'RR',\n F1R2: 'RR',\n\n R2R1: 'RL',\n F1F2: 'RL',\n } as Record<string, string>,\n}\n\nexport const pairMap = {\n LR: 'color_pair_lr',\n LL: 'color_pair_ll',\n RR: 'color_pair_rr',\n RL: 'color_pair_rl',\n} as const\n\nexport function getColorWGBS(strand: number, base: string) {\n if (strand === 1) {\n if (base === 'C') {\n return '#f00'\n }\n if (base === 'T') {\n return '#00f'\n }\n } else if (strand === -1) {\n if (base === 'G') {\n return '#f00'\n }\n if (base === 'A') {\n return '#00f'\n }\n }\n return '#888'\n}\n\n// fetches region sequence augmenting by +/- 1bp for CpG on either side of\n// requested region\nexport async function fetchSequence(\n region: AugmentedRegion,\n adapter: BaseFeatureDataAdapter,\n) {\n const { start, end, originalRefName, refName } = region\n\n const feats = await firstValueFrom(\n adapter\n .getFeatures({\n ...region,\n refName: originalRefName || refName,\n end: end + 1,\n start: Math.max(0, start - 1),\n })\n .pipe(toArray()),\n )\n return feats[0]?.get('seq')\n}\n\n// has to check underlying C-G (aka CpG) on the reference sequence\nexport function shouldFetchReferenceSequence(type?: string) {\n return type === 'methylation'\n}\n\n// adapted from IGV\n// https://github.com/igvteam/igv/blob/e803e3af2d8c9ea049961dfd4628146bdde9a574/src/main/java/org/broad/igv/sam/mods/BaseModificationColors.java#L27\nexport const modificationColors = {\n m: 'rgb(255,0,0)',\n h: 'rgb(11, 132, 165)',\n o: 'rgb(111, 78, 129)',\n f: 'rgb(246, 200, 95)',\n c: 'rgb(157, 216, 102)',\n g: 'rgb(255, 160, 86)',\n e: 'rgb(141, 221, 208)',\n b: 'rgb(202, 71, 47)',\n} as Record<string, string>\n\ntype DisplayModel = IAnyStateTreeNode & { setError: (arg: unknown) => void }\n\nexport function createAutorun(\n self: DisplayModel,\n cb: () => Promise<void>,\n opts?: IAutorunOptions,\n) {\n addDisposer(\n self,\n autorun(async () => {\n try {\n await cb()\n } catch (e) {\n if (isAlive(self)) {\n self.setError(e)\n }\n }\n }, opts),\n )\n}\nexport function randomColor() {\n return `hsl(${Math.random() * 200}, 50%, 50%)`\n}\n","import {\n dedupe,\n Feature,\n getContainingTrack,\n getContainingView,\n getSession,\n} from '@jbrowse/core/util'\nimport { LinearGenomeViewModel } from '@jbrowse/plugin-linear-genome-view'\nimport { LinearArcDisplayModel } from './model'\n\ntype LGV = LinearGenomeViewModel\n\nexport interface ReducedFeature {\n name: string\n strand: number\n refName: string\n start: number\n end: number\n id: string\n flags: number\n tlen: number\n pair_orientation: string\n next_ref?: string\n next_pos?: number\n clipPos: number\n SA?: string\n}\n\nexport interface ChainStats {\n max: number\n min: number\n upper: number\n lower: number\n}\n\nexport interface ChainData {\n chains: ReducedFeature[][]\n stats?: ChainStats\n}\n\nexport async function fetchChains(self: LinearArcDisplayModel) {\n // @ts-expect-error\n const { rpcSessionId: sessionId } = getContainingTrack(self)\n const { rpcManager } = getSession(self)\n const view = getContainingView(self) as LGV\n\n if (!view.initialized || self.error || self.regionTooLarge) {\n return\n }\n\n self.setLoading(true)\n const ret = (await rpcManager.call(sessionId, 'CoreGetFeatures', {\n sessionId,\n regions: view.staticBlocks.contentBlocks,\n adapterConfig: self.adapterConfig,\n })) as Feature[]\n\n self.setFeatures(dedupe(ret, r => r.id()))\n self.setLoading(false)\n}\n"],"names":["doAfterAttach","self","cb","addDisposer","autorun","async","e","isAlive","setError","delay","createAutorun","rpcSessionId","sessionId","getContainingTrack","rpcManager","getSession","view","getContainingView","initialized","error","regionTooLarge","setLoading","ret","call","regions","staticBlocks","contentBlocks","adapterConfig","setFeatures","dedupe","r","id","fetchChains"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3525.e74d3ff0.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3525.e74d3ff0.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3525.e74d3ff0.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3525.e74d3ff0.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3550.089089a8.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3550.089089a8.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3550.089089a8.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3578.058bdae5.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3578.058bdae5.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3578.058bdae5.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3614.af493134.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3614.af493134.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3614.af493134.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3614.af493134.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/366.b00bf6ca.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/366.b00bf6ca.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/366.b00bf6ca.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/366.b00bf6ca.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3682.840e721c.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3682.840e721c.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3795.0386c297.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3862.9fd8e870.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3862.9fd8e870.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3862.9fd8e870.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3862.9fd8e870.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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internal component.\\n */\\nimport { jsx as _jsx } from \\"react/jsx-runtime\\";\\nexport default createSvgIcon(/*#__PURE__*/_jsx(\\"path\\", {\\n d: \\"M20 12l-1.41-1.41L13 16.17V4h-2v12.17l-5.58-5.59L4 12l8 8 8-8z\\"\\n}), \'ArrowDownward\');","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getTableSortLabelUtilityClass(slot) {\\n return generateUtilityClass(\'MuiTableSortLabel\', slot);\\n}\\nconst tableSortLabelClasses = generateUtilityClasses(\'MuiTableSortLabel\', [\'root\', \'active\', \'icon\', \'iconDirectionDesc\', \'iconDirectionAsc\', \'directionDesc\', \'directionAsc\']);\\nexport default tableSortLabelClasses;","\'use client\';\\n\\nimport composeClasses from \'@mui/utils/composeClasses\';\\nimport clsx from \'clsx\';\\nimport PropTypes from \'prop-types\';\\nimport * as React from \'react\';\\nimport ButtonBase from \\"../ButtonBase/index.js\\";\\nimport ArrowDownwardIcon from \\"../internal/svg-icons/ArrowDownward.js\\";\\nimport { styled } from \\"../zero-styled/index.js\\";\\nimport memoTheme from \\"../utils/memoTheme.js\\";\\nimport { useDefaultProps } from \\"../DefaultPropsProvider/index.js\\";\\nimport capitalize from \\"../utils/capitalize.js\\";\\nimport tableSortLabelClasses, { getTableSortLabelUtilityClass } from \\"./tableSortLabelClasses.js\\";\\nimport { jsx as _jsx, jsxs as _jsxs } from \\"react/jsx-runtime\\";\\nconst useUtilityClasses = ownerState => {\\n const {\\n classes,\\n direction,\\n active\\n } = ownerState;\\n const slots = {\\n root: [\'root\', active && \'active'..b' transition: theme.transitions.create([\'opacity\', \'transform\'], {\\n duration: theme.transitions.duration.shorter\\n }),\\n userSelect: \'none\',\\n variants: [{\\n props: {\\n direction: \'desc\'\\n },\\n style: {\\n transform: \'rotate(0deg)\'\\n }\\n }, {\\n props: {\\n direction: \'asc\'\\n },\\n style: {\\n transform: \'rotate(180deg)\'\\n }\\n }]\\n})));\\n\\n/**\\n * A button based label for placing inside `TableCell` for column sorting.\\n */\\nconst TableSortLabel = /*#__PURE__*/React.forwardRef(function TableSortLabel(inProps, ref) {\\n const props = useDefaultProps({\\n props: inProps,\\n name: \'MuiTableSortLabel\'\\n });\\n const {\\n active = false,\\n children,\\n className,\\n direction = \'asc\',\\n hideSortIcon = false,\\n IconComponent = ArrowDownwardIcon,\\n ...other\\n } = props;\\n const ownerState = {\\n ...props,\\n active,\\n direction,\\n hideSortIcon,\\n IconComponent\\n };\\n const classes = useUtilityClasses(ownerState);\\n return /*#__PURE__*/_jsxs(TableSortLabelRoot, {\\n className: clsx(classes.root, className),\\n component: \\"span\\",\\n disableRipple: true,\\n ownerState: ownerState,\\n ref: ref,\\n ...other,\\n children: [children, hideSortIcon && !active ? null : /*#__PURE__*/_jsx(TableSortLabelIcon, {\\n as: IconComponent,\\n className: clsx(classes.icon),\\n ownerState: ownerState\\n })]\\n });\\n});\\nprocess.env.NODE_ENV !== \\"production\\" ? 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3902.69c7ff0c.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3902.69c7ff0c.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

b'@@ -0,0 +1,3 @@\n+/*! 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3902.69c7ff0c.chunk.js.LICENSE.txt
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3902.69c7ff0c.chunk.js.LICENSE.txt Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,6 @@
+/*!
+ * The buffer module from node.js, for the browser.
+ *
+ * @author Feross Aboukhadijeh <https://feross.org>
+ * @license MIT
+ */

diff -r 137e08517410 -r 49f3d3878413 x/static/js/3902.69c7ff0c.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3940.c8b3da50.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3940.c8b3da50.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/3940.c8b3da50.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/3940.c8b3da50.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/399.e36b7683.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/399.e36b7683.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/399.e36b7683.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/399.e36b7683.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4033.df8ecd0d.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4033.df8ecd0d.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4033.df8ecd0d.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4033.df8ecd0d.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4060.8757dbe8.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4060.8757dbe8.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4060.8757dbe8.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4060.8757dbe8.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4133.451f5e47.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4133.451f5e47.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4138.57ad92a3.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4138.57ad92a3.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4138.57ad92a3.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/419.021427b6.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/419.021427b6.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/419.021427b6.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/419.021427b6.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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could possibly be moved into a higher directory and shared between the two\\nimport { toUrlSafeB64 } from \'./utils\'\\n\\n// from https://stackoverflow.com/questions/1349404/\\nfunction generateUID(length: number) {\\n return window\\n .btoa(\\n [...window.crypto.getRandomValues(new Uint8Array(length * 2))]\\n .map(b => String.fromCharCode(b))\\n .join(\'\'),\\n )\\n .replaceAll(/[+/]/g, \'\')\\n .slice(0, length)\\n}\\n\\nconst encrypt = async (text: string, password: string) => {\\n const AES = await import(\'crypto-js/aes\')\\n return AES.encrypt(text, password).toString()\\n}\\n\\nconst decrypt = async (text: string, password: string) => {\\n const AES = await import(\'crypto-js/aes\')\\n const Utf8 = await import(\'crypto-js/enc-utf8\')\\n const bytes = AES.decrypt(text, password)\\n return bytes.toString(Utf8)\\n}\\n\\nfunction getErrorMsg(err: string) {\\n try {\\n const obj = JSON.parse(err)\\n return obj.message\\n } catch (e) {\\n return err\\n }\\n}\\n// writes the encrypted session, current datetime, and referer to DynamoDB\\nexport async function shareSessionToDynamo(\\n session: unknown,\\n url: string,\\n referer: string,\\n) {\\n const sess = await toUrlSafeB64(JSON.stringify(session))\\n const password = generateUID(5)\\n const encryptedSession = await encrypt(sess, password)\\n\\n const data = new FormData()\\n data.append(\'session\', encryptedSession)\\n data.append(\'dateShared\', `${Date.now()}`)\\n data.append(\'referer\', referer)\\n\\n const response = await fetch(`${url}share`, {\\n method: \'POST\',\\n mode: \'cors\',\\n body: data,\\n })\\n\\n if (!response.ok) {\\n const err = await response.text()\\n throw new Error(getErrorMsg(err))\\n }\\n const json = await response.json()\\n return {\\n json,\\n encryptedSession,\\n password,\\n }\\n}\\n\\nexport async function readSessionFromDynamo(\\n baseUrl: string,\\n sessionQueryParam: string,\\n password: string,\\n signal?: AbortSignal,\\n) {\\n const sessionId = sessionQueryParam.split(\'share-\')[1]!\\n const url = `${baseUrl}?sessionId=${encodeURIComponent(sessionId)}`\\n const response = await fetch(url, {\\n signal,\\n })\\n\\n if (!response.ok) {\\n const err = await response.text()\\n throw new Error(getErrorMsg(err))\\n }\\n\\n const json = await response.json()\\n return decrypt(json.session, password)\\n}\\n"],"names":["useStyles","makeStyles","flexItem","margin","content","display","flexFlow","gap","observer","onClose","model","classes","url","setUrl","useState","error","setError","loading","setLoading","session","getSession","selectedBookmarks","shareAll","length","bookmarksToShare","allBookmarksModel","sharedBookmarksModel","useEffect","isSessionWithShareURL","Error","snap","getSnapshot","locationUrl","URL","window","location","href","result","shareSessionToDynamo","shareURL","params","URLSearchParams","search","set","json","sessionId","password","toString","e","React","Dialog","open","title","DialogContent","className","Alert","severity","DialogContentText","ErrorMessage","Typography","TextField","label","value","slotProps","input","readOnly","variant","fullWidth","onClick","event","target","select","DialogActions","Button","color","disabled","startIcon","ContentCopyIcon","async","copy","notify","encrypt","text","decrypt","AES","Utf8","getErrorMsg","err","JSON","parse","message","referer","sess","toUrlSafeB64","stringify","btoa","crypto","getRandomValues","Uint8Array","map","b","String","fromCharCode","join","replaceAll","slice","encryptedSession","data","FormData","append","Date","now","response","fetch","method","mode","body","ok","readSessionFromDynamo","baseUrl","sessionQueryParam","signal","split","encodeURIComponent"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4234.63e1ba57.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4234.63e1ba57.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[4234],{14234:(e,t,a)=>{a.r(t),a.d(t,{default:()=>c});var s=a(93902),r=a(46377),i=a(99834),n=a(99546),u=a(66885),o=a(37957);class c extends r.BaseFeatureDataAdapter{static capabilities=["hasResolution","hasLocalStats","hasGlobalStats"];async setupPre(e){const{statusCallback:t=()=>{}}=e||{},a=this.pluginManager,r=new s.j({filehandle:(0,i.openLocation)(this.getConf("bigWigLocation"),a)}),u=await(0,n.updateStatus)("Downloading bigwig header",t,(()=>r.getHeader(e)));return{bigwig:r,header:u}}async setup(e){return this.setupP||(this.setupP=this.setupPre(e).catch((e=>{throw this.setupP=void 0,e}))),this.setupP}async getRefNames(e){const{header:t}=await this.setup(e);return Object.keys(t.refsByName)}async refIdToName(e){const{header:t}=await this.setup();return t.refsByNumber[e]?.name}async getGlobalStats(e){const{header:t}=await this.setup(e);return(0,o.WD)(t.totalSummary)}getFeatures(e,t={}){const{refName:a,start:s,end:r}=e,{bpPerPx:i=0,signal:n,resolution:o=1,statusCallback:c=()=>{}}=t;return(0,u.ObservableCreate)((async n=>{c("Downloading bigwig data");const u=this.getConf("source"),{bigwig:h}=await this.setup(t),l=await h.getFeatures(a,s,r,{...t,basesPerSpan:i/o});for(const t of l){u&&(t.source=u);const s=`${u}:${e.refName}:${t.start}-${t.end}`;t.refName=a,t.uniqueId=s,n.next({get:e=>t[e],id:()=>s,toJSON:()=>t})}n.complete()}),n)}async getMultiRegionFeatureDensityStats(e){return{featureDensity:0}}freeResources(){}}}}]);
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4234.63e1ba57.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4234.63e1ba57.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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{ BigWig } from '@gmod/bbi'\nimport {\n BaseFeatureDataAdapter,\n BaseOptions,\n} from '@jbrowse/core/data_adapters/BaseAdapter'\nimport { AugmentedRegion as Region } from '@jbrowse/core/util/types'\nimport { openLocation } from '@jbrowse/core/util/io'\nimport { updateStatus, Feature } from '@jbrowse/core/util'\nimport { ObservableCreate } from '@jbrowse/core/util/rxjs'\nimport {\n rectifyStats,\n UnrectifiedQuantitativeStats,\n} from '@jbrowse/core/util/stats'\n\ninterface WiggleOptions extends BaseOptions {\n resolution?: number\n}\n\nexport default class BigWigAdapter extends BaseFeatureDataAdapter {\n private setupP?: Promise<{\n bigwig: BigWig\n header: Awaited<ReturnType<BigWig['getHeader']>>\n }>\n\n public static capabilities = [\n 'hasResolution',\n 'hasLocalStats',\n 'hasGlobalStats',\n ]\n\n private async setupPre(opts?: BaseOptions) {\n const { statusCallback = () => {} } = opts || {}\n const pm = this.pluginManager\n const bigwig = new BigWig({\n filehandle: openLocation(this.getConf('bigWigLocation'), pm),\n })\n const header = await updateStatus(\n 'Downloading bigwig header',\n statusCallback,\n () => bigwig.getHeader(opts),\n )\n return { bigwig, header }\n }\n\n async setup(opts?: BaseOptions) {\n if (!this.setupP) {\n this.setupP = this.setupPre(opts).catch((e: unknown) => {\n this.setupP = undefined\n throw e\n })\n }\n return this.setupP\n }\n\n public async getRefNames(opts?: BaseOptions) {\n const { header } = await this.setup(opts)\n return Object.keys(header.refsByName)\n }\n\n public async refIdToName(refId: number) {\n const { header } = await this.setup()\n return header.refsByNumber[refId]?.name\n }\n\n public async getGlobalStats(opts?: BaseOptions) {\n const { header } = await this.setup(opts)\n return rectifyStats(header.totalSummary as UnrectifiedQuantitativeStats)\n }\n\n public getFeatures(region: Region, opts: WiggleOptions = {}) {\n const { refName, start, end } = region\n const {\n bpPerPx = 0,\n signal,\n resolution = 1,\n statusCallback = () => {},\n } = opts\n return ObservableCreate<Feature>(async observer => {\n statusCallback('Downloading bigwig data')\n const source = this.getConf('source')\n const { bigwig } = await this.setup(opts)\n const feats = await bigwig.getFeatures(refName, start, end, {\n ...opts,\n basesPerSpan: bpPerPx / resolution,\n })\n\n for (const data of feats) {\n if (source) {\n // @ts-expect-error\n data.source = source\n }\n const uniqueId = `${source}:${region.refName}:${data.start}-${data.end}`\n // @ts-expect-error\n data.refName = refName\n data.uniqueId = uniqueId\n observer.next({\n // @ts-expect-error\n get: (str: string) => (data as Record<string, unknown>)[str],\n id: () => uniqueId,\n // @ts-expect-error\n toJSON: () => data,\n })\n }\n observer.complete()\n }, signal)\n }\n\n // always render bigwig instead of calculating a feature density for it\n async getMultiRegionFeatureDensityStats(_regions: Region[]) {\n return { featureDensity: 0 }\n }\n\n public freeResources(): void {}\n}\n"],"names":["BigWigAdapter","BaseFeatureDataAdapter","setupPre","opts","statusCallback","pm","this","pluginManager","bigwig","BigWig","filehandle","openLocation","getConf","header","updateStatus","getHeader","setup","setupP","catch","e","undefined","getRefNames","Object","keys","refsByName","refIdToName","refId","refsByNumber","name","getGlobalStats","rectifyStats","totalSummary","getFeatures","region","refName","start","end","bpPerPx","signal","resolution","ObservableCreate","async","source","feats","basesPerSpan","data","uniqueId","observer","next","get","str","id","toJSON","complete","getMultiRegionFeatureDensityStats","_regions","featureDensity","freeResources"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4284.61dbc58f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4284.61dbc58f.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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+//# sourceMappingURL=4284.61dbc58f.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4284.61dbc58f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4284.61dbc58f.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4345.0a9072cc.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4345.0a9072cc.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4345.0a9072cc.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4435.a57cabe2.chunk.js.map
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aligned** as that allows\\n * you to add them up quickly in your head without having to worry about decimals.\\n * @default \'inherit\'\\n */\\n align: PropTypes.oneOf([\'center\', \'inherit\', \'justify\', \'left\', \'right\']),\\n /**\\n * The content of the component.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * Sets the padding applied to the cell.\\n * The prop defaults to the value (`\'default\'`) inherited from the parent Table component.\\n */\\n padding: PropTypes.oneOf([\'checkbox\', \'none\', \'normal\']),\\n /**\\n * Set scope attribute.\\n */\\n scope: PropTypes.string,\\n /**\\n * Specify the size of the cell.\\n * The prop defaults to the value (`\'medium\'`) inherited from the parent Table component.\\n */\\n size: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'medium\', \'small\']), PropTypes.string]),\\n /**\\n * Set aria-sort direction.\\n */\\n sortDirection: PropTypes.oneOf([\'asc\', \'desc\', false]),\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * Specify the cell type.\\n * The prop defaults to the value inherited from the parent TableHead, TableBody, or TableFooter components.\\n */\\n variant: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'body\', \'footer\', \'head\']), PropTypes.string])\\n} : void 0;\\nexport default TableCell;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getTableCellUtilityClass(slot) {\\n return generateUtilityClass(\'MuiTableCell\', slot);\\n}\\nconst tableCellClasses = generateUtilityClasses(\'MuiTableCell\', [\'root\', \'head\', \'body\', \'footer\', \'sizeSmall\', \'sizeMedium\', \'paddingCheckbox\', \'paddingNone\', \'alignLeft\', \'alignCenter\', \'alignRight\', \'alignJustify\', \'stickyHeader\']);\\nexport default tableCellClasses;"],"names":["TableCellRoot","name","slot","overridesResolver","props","styles","ownerState","root","variant","size","padding","align","stickyHeader","theme","typography","body2","display","verticalAlign","borderBottom","vars","palette","TableCell","border","mode","divider","textAlign","variants","style","color","text","primary","lineHeight","pxToRem","fontWeight","fontWeightMedium","secondary","fontSize","paddingCheckbox","width","flexDirection","position","top","zIndex","backgroundColor","background","default","inProps","ref","className","component","componentProp","paddingProp","scope","scopeProp","sizeProp","sortDirection","variantProp","other","table","tablelvl2","isHeadCell","undefined","classes","slots","useUtilityClasses","ariaSort","as","getTableCellUtilityClass"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4456.93a06b74.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4456.93a06b74.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4456.93a06b74.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4456.93a06b74.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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(\\n <ConfigureConnection\\n connectionType={connectionType}\\n model={configModel}\\n session={session}\\n />\\n ) : null}\\n <div className={classes.actionsContainer}>\\n <Button\\n disabled={activeStep === 0}\\n onClick={() => {\\n setActiveStep(activeStep - 1)\\n }}\\n className={classes.button}\\n >\\n Back\\n </Button>\\n <Button\\n disabled={\\n !(\\n (activeStep === 0 && connectionType) ||\\n (activeStep === 1 && configModel)\\n )\\n }\\n variant=\\"contained\\"\\n color=\\"primary\\"\\n onClick={() => {\\n if (activeStep === steps.length - 1) {\\n if (configModel && isSessionWithConnections(session)) {\\n const conf = session.addConnectionConf(configModel)\\n session.makeConnection(conf)\\n } else {\\n session.notify(\'No config model to add\')\\n }\\n\\n if (isSessionModelWithWidgets(session)) {\\n session.hideWidget(model)\\n }\\n } else {\\n setActiveStep(activeStep + 1)\\n }\\n }}\\n className={classes.button}\\n data-testid=\\"addConnectionNext\\"\\n >\\n {activeStep === steps.length - 1 ? \'Connect\' : \'Next\'}\\n </Button>\\n </div>\\n </StepContent>\\n </Step>\\n ))}\\n </Stepper>\\n </div>\\n )\\n})\\n\\nexport default AddConnectionWidget\\n"],"names":["BaseSessionModel","_pluginManager","types","model","id","ElementId","name","string","margin","volatile","selection","undefined","hovered","views","self","root","getParent","jbrowse","rpcManager","configuration","this","adminMode","textSearchManager","assemblies","actions","setSelection","thing","clearSelection","setHovered","isBaseSession","ConnectionManagementSessionMixin","pluginManager","connectionInstances","array","pluggableMstType","connections","makeConnection","initialSnapshot","type","Error","readConfObject","getConnectionType","length","push","prepareToBreakConnection","callbacksToDeref","derefTypeCount","connection","find","c","track","tracks","ref","getReferring","removeReferring","forEach","cb","breakConnection","remove","deleteConnection","deleteConnectionConf","addConnectionConf","connectionConf","clearConnections","clear","isSessionWithConnections","session","observer","connectionType","ConfigEditorComponent","configEditorComponent","ConfigurationEditor","React","Suspense","fallback","LoadingEllipses","target","connectionTypeChoices","setConnectionType","firstChoice","useEffect","autoComplete","TextField","value","label","helperText","description","url","IconButton","href","rel","OpenInNewIcon","select","fullWidth","onChange","event","variant","map","MenuItem","key","displayName","useStyles","makeStyles","theme","marginTop","spacing","stepper","backgroundColor","palette","background","default","button","marginRight","actionsContainer","marginBottom","steps","useState","connectionId","setConnectionId","activeStep","setActiveStep","classes","getSession","getEnv","configModel","useMemo","configSchema","create","className","Stepper","orientation","Step","StepLabel","StepContent","ConnectionTypeSelect","getConnectionElements","Date","now","ConfigureConnection","Button","disabled","onClick","color","conf","notify","isSessionModelWithWidgets","hideWidget"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4499.3f0b2e70.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4499.3f0b2e70.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

b'@@ -0,0 +1,2 @@\n+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[4499,7706],{7706:(t,e,r)=>{r.d(e,{sG:()=>u,unzip:()=>o,i2:()=>s});var i=r(35451),l=r(45834),n=r(57864);async function o(t){try{let e,r=0,l=0;const o=[];let s,h=0;do{const i=t.subarray(r);if(s=new n.Inflate,({strm:e}=s),s.push(i,n.Z_SYNC_FLUSH),s.err)throw new Error(s.msg);r+=e.next_in,o[l]=s.result,h+=o[l].length,l+=1}while(e.avail_in);const a=new Uint8Array(h);for(let t=0,e=0;t<o.length;t++)a.set(o[t],e),e+=o[t].length;return i.hp.from(a)}catch(t){if(`${t}`.match(/incorrect header check/))throw new Error("problem decompressing block: incorrect gzip header check");throw t}}async function s(t,e){try{let r;const{minv:l,maxv:o}=e;let s=l.blockPosition,h=l.dataPosition;const a=[],c=[],u=[];let _=0,p=0;do{const e=t.subarray(s-l.blockPosition),i=new n.Inflate;if(({strm:r}=i),i.push(e,n.Z_SYNC_FLUSH),i.err)throw new Error(i.msg);const m=i.result;a.push(m);let 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c=h+1;for(;c<i.length&&(l.push(i[c]),!(i[c][1]>=r));c+=1);return l[l.length-1][1]<r&&l.push([]),l}}class u{constructor({filehandle:t,path:e,gziFilehandle:r,gziPath:i}){if(t)this.filehandle=t;else{if(!e)throw new TypeError("either filehandle or path must be defined");this.filehandle=new l.EY(e)}if(!r&&!i&&!e)throw new TypeError("either gziFilehandle or gziPath must be defined");this.gzi=new c({filehandle:r,path:r||i||!e?`${e}.gzi`:i})}async stat(){const t=await this.filehandle.stat();return Object.assign(t,{size:await this.getUncompressedFileSize(),blocks:void 0,blksize:void 0})}async getUncompressedFileSize(){const[,t]=await this.gzi.getLastBlock(),{size:e}=await this.filehandle.stat(),r=i.hp.allocUnsafe(4),{bytesRead:l}=await this.filehandle.read(r,0,4,e-28-4);if(4!==l)throw new Error("read error");return t+r.readUInt32LE(0)}async _readAndUncompressBlock(t,[e],[r]){let i=r;i||(i=(await this.filehandle.stat()).size);const l=i-e;return await this.filehandle.read(t,0,l,e),await o(t.slice(0,l))}async read(t,e,r,l){const n=await this.gzi.getRelevantBl'..b'nt.color=0,e=e.parent.parent):(e===e.parent.right&&(e=e.parent,this.rotate_left(e)),e.parent.color=1,e.parent.parent.color=0,this.rotate_right(e.parent.parent))):(r=e.parent.parent.left,0===r.color?(e.parent.color=1,r.color=1,e.parent.parent.color=0,e=e.parent.parent):(e===e.parent.left&&(e=e.parent,this.rotate_right(e)),e.parent.color=1,e.parent.parent.color=0,this.rotate_left(e.parent.parent)));this.root.color=1}tree_delete(t){let e,r;e=t.left===this.nil_node||t.right===this.nil_node?t:this.tree_successor(t),r=e.left!==this.nil_node?e.left:e.right,r.parent=e.parent,e===this.root?this.root=r:(e===e.parent.left?e.parent.left=r:e.parent.right=r,e.parent.update_max()),this.recalc_max(r),e!==t&&(t.copy_data(e),t.update_max(),this.recalc_max(t)),1===e.color&&this.delete_fixup(r)}delete_fixup(t){let e,r=t;for(;r!==this.root&&null!=r.parent&&1===r.color;)r===r.parent.left?(e=r.parent.right,0===e.color&&(e.color=1,r.parent.color=0,this.rotate_left(r.parent),e=r.parent.right),1===e.left.color&&1===e.right.color?(e.color=0,r=r.parent):(1===e.right.color&&(e.color=0,e.left.color=1,this.rotate_right(e),e=r.parent.right),e.color=r.parent.color,r.parent.color=1,e.right.color=1,this.rotate_left(r.parent),r=this.root)):(e=r.parent.left,0===e.color&&(e.color=1,r.parent.color=0,this.rotate_right(r.parent),e=r.parent.left),1===e.left.color&&1===e.right.color?(e.color=0,r=r.parent):(1===e.left.color&&(e.color=0,e.right.color=1,this.rotate_left(e),e=r.parent.left),e.color=r.parent.color,r.parent.color=1,e.left.color=1,this.rotate_right(r.parent),r=this.root));r.color=1}tree_search(t,e){if(null!=t&&t!==this.nil_node)return e.equal_to(t)?t:e.less_than(t)?this.tree_search(t.left,e):this.tree_search(t.right,e)}tree_search_nearest_forward(t,e){let r,i=t;for(;i&&i!==this.nil_node;)i.less_than(e)?i.intersect(e)?(r=i,i=i.left):i=i.right:(r&&!i.less_than(r)||(r=i),i=i.left);return r||null}tree_search_interval(t,e,r){null!=t&&t!==this.nil_node&&(t.left===this.nil_node||t.not_intersect_left_subtree(e)||this.tree_search_interval(t.left,e,r),t.intersect(e)&&r.push(t),t.right===this.nil_node||t.not_intersect_right_subtree(e)||this.tree_search_interval(t.right,e,r))}tree_find_any_interval(t,e){let r=!1;return null!=t&&t!==this.nil_node&&(t.left===this.nil_node||t.not_intersect_left_subtree(e)||(r=this.tree_find_any_interval(t.left,e)),r||(r=t.intersect(e)),r||t.right===this.nil_node||t.not_intersect_right_subtree(e)||(r=this.tree_find_any_interval(t.right,e))),r}local_minimum(t){let e=t;for(;null!=e.left&&e.left!==this.nil_node;)e=e.left;return e}local_maximum(t){let e=t;for(;null!=e.right&&e.right!==this.nil_node;)e=e.right;return e}tree_successor(t){let e,r,i;if(t.right!==this.nil_node)e=this.local_minimum(t.right);else{for(r=t,i=t.parent;null!=i&&i.right===r;)r=i,i=i.parent;e=i}return e}rotate_left(t){let e=t.right;t.right=e.left,e.left!==this.nil_node&&(e.left.parent=t),e.parent=t.parent,t===this.root?this.root=e:t===t.parent.left?t.parent.left=e:t.parent.right=e,e.left=t,t.parent=e,null!=t&&t!==this.nil_node&&t.update_max(),e=t.parent,null!=e&&e!==this.nil_node&&e.update_max()}rotate_right(t){let e=t.left;t.left=e.right,e.right!==this.nil_node&&(e.right.parent=t),e.parent=t.parent,t===this.root?this.root=e:t===t.parent.left?t.parent.left=e:t.parent.right=e,e.right=t,t.parent=e,null!==t&&t!==this.nil_node&&t.update_max(),e=t.parent,null!=e&&e!==this.nil_node&&e.update_max()}tree_walk(t,e){null!=t&&t!==this.nil_node&&(this.tree_walk(t.left,e),e(t),this.tree_walk(t.right,e))}testRedBlackProperty(){let t=!0;return this.tree_walk(this.root,(function(e){0===e.color&&(1===e.left.color&&1===e.right.color||(t=!1))})),t}testBlackHeightProperty(t){let e=0,r=0,i=0;if(1===t.color&&e++,r=t.left!==this.nil_node?this.testBlackHeightProperty(t.left):1,i=t.right!==this.nil_node?this.testBlackHeightProperty(t.right):1,r!==i)throw new Error("Red-black height property violated");return e+=r,e}}}}]);\n+//# sourceMappingURL=4499.3f0b2e70.chunk.js.map\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4499.3f0b2e70.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4499.3f0b2e70.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/457.6d7b716d.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/457.6d7b716d.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/457.6d7b716d.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/457.6d7b716d.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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onChange={event => {\\n setCopyTracks(event.target.checked)\\n }}\\n />\\n\\n <TextField\\n label=\\"Window size (bp)\\"\\n value={windowSize}\\n onChange={event => {\\n setWindowSize(event.target.value)\\n }}\\n />\\n </DialogContent>\\n <DialogActions>\\n <Button\\n onClick={() => {\\n const session = getSession(model)\\n // eslint-disable-next-line @typescript-eslint/no-floating-promises\\n ;(async () => {\\n try {\\n const assembly = session.assemblyManager.get(assemblyName)\\n const w = +windowSize\\n if (Number.isNaN(w)) {\\n throw new Error(\'windowSize not a number\')\\n }\\n const { refName, pos, mateRefName, matePos } =\\n // @ts-expect-error\\n viewType.getBreakendCoveringRegions({ feature, assembly })\\n\\n const breakpointSplitView = session.addView(\\n \'BreakpointSplitView\',\\n {\\n type: \'BreakpointSplitView\',\\n displayName: `${\\n feature.get(\'name\') || feature.get(\'id\') || \'breakend\'\\n } split detail`,\\n views: [\\n {\\n type: \'LinearGenomeView\',\\n tracks: stripIds(getSnapshot(view.tracks)),\\n },\\n ],\\n },\\n ) as unknown as { views: LinearGenomeViewModel[] }\\n\\n await breakpointSplitView.views[0]!.navToLocations(\\n gatherOverlaps(\\n [\\n {\\n refName,\\n start: Math.max(0, pos - w),\\n end: pos + w,\\n assemblyName,\\n },\\n {\\n refName: mateRefName,\\n start: Math.max(0, matePos - w),\\n end: matePos + w,\\n assemblyName,\\n },\\n ],\\n w,\\n ),\\n )\\n } catch (e) {\\n console.error(e)\\n session.notify(`${e}`)\\n }\\n })()\\n handleClose()\\n }}\\n variant=\\"contained\\"\\n color=\\"primary\\"\\n autoFocus\\n >\\n OK\\n </Button>\\n <Button\\n color=\\"secondary\\"\\n variant=\\"contained\\"\\n onClick={() => {\\n handleClose()\\n }}\\n >\\n Cancel\\n </Button>\\n </DialogActions>\\n </Dialog>\\n )\\n})\\n\\nexport default 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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4615.dc35870f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4615.dc35870f.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4629.1f1a55a3.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4629.1f1a55a3.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4629.1f1a55a3.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4629.1f1a55a3.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\xe2\x94\x94\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x98\\n /**\\n * The content of the component.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The color of the link.\\n * @default \'primary\'\\n */\\n color: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'primary\', \'secondary\', \'success\', \'error\', \'info\', \'warning\', \'textPrimary\', \'textSecondary\', \'textDisabled\']), PropTypes.string]),\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: elementTypeAcceptingRef,\\n /**\\n * @ignore\\n */\\n onBlur: PropTypes.func,\\n /**\\n * @ignore\\n */\\n onFocus: PropTypes.func,\\n /**\\n * @ignore\\n */\\n style: PropTypes.object,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * `classes` prop applied to the [`Typography`](https://mui.com/material-ui/api/typography/) element.\\n */\\n TypographyClasses: PropTypes.object,\\n /**\\n * Controls when the link should have an underline.\\n * @default \'always\'\\n */\\n underline: PropTypes.oneOf([\'always\', \'hover\', \'none\']),\\n /**\\n * Applies the theme typography styles.\\n * @default \'inherit\'\\n */\\n variant: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'body1\', \'body2\', \'button\', \'caption\', \'h1\', \'h2\', \'h3\', \'h4\', \'h5\', \'h6\', \'inherit\', \'overline\', \'subtitle1\', \'subtitle2\']), PropTypes.string])\\n} : void 0;\\nexport default Link;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getLinkUtilityClass(slot) {\\n return generateUtilityClass(\'MuiLink\', slot);\\n}\\nconst linkClasses = generateUtilityClasses(\'MuiLink\', [\'root\', \'underlineNone\', \'underlineHover\', \'underlineAlways\', \'button\', \'focusVisible\']);\\nexport default linkClasses;"],"names":["theme","ownerState","transformedColor","color","channelColor","v6Colors","primary","secondary","error","info","success","warning","textPrimary","textSecondary","textDisabled","LinkRoot","styled","Typography","name","slot","overridesResolver","props","styles","root","capitalize","underline","component","button","memoTheme","variants","style","textDecoration","textDecorationColor","Object","entries","palette","filter","createSimplePaletteValueFilter","map","vars","mainChannel","main","text","primaryChannel","secondaryChannel","disabled","position","WebkitTapHighlightColor","backgroundColor","outline","border","margin","borderRadius","padding","cursor","userSelect","verticalAlign","MozAppearance","WebkitAppearance","borderStyle","linkClasses","focusVisible","inProps","ref","useTheme","className","onBlur","onFocus","TypographyClasses","variant","sx","other","setFocusVisible","classes","slots","composeClasses","useUtilityClasses","clsx","event","isFocusVisible","target","undefined","Array","isArray","getLinkUtilityClass"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4630.f0bdb9f0.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4630.f0bdb9f0.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4630.f0bdb9f0.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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(\\n <LoadingEllipses variant=\\"h6\\" />\\n ) : (\\n <Contents text={errorBoxText} extra={extra} />\\n )}\\n </DialogContent>\\n <DialogActions>\\n <Button\\n variant=\\"contained\\"\\n color=\\"secondary\\"\\n onClick={() => {\\n copy(errorBoxText)\\n setClicked(true)\\n setTimeout(() => {\\n setClicked(false)\\n }, 1000)\\n }}\\n >\\n {clicked ? \'Copied!\' : \'Copy stack trace to clipboard\'}\\n </Button>\\n <Button variant=\\"contained\\" color=\\"primary\\" onClick={onClose}>\\n Close\\n </Button>\\n </DialogActions>\\n </Dialog>\\n )\\n}\\n"],"names":["Link2","href","children","React","Link","target","async","myfetch","uri","res","fetch","ok","Error","status","text","sourceMaps","getSourceMapFromUri","undefined","uriQuery","URL","search","currentScriptContent","myfetchtext","mapUri","RegExp","exec","data","json","myfetchjson","map","SourceMapConsumer","MAX_ERR_LEN","useStyles","makeStyles","theme","pre","background","alpha","palette","error","main","border","divider","overflow","margin","maxHeight","Contents","extra","classes","err","encodeURIComponent","JSON","stringify","join","err2","email","githubLink","emailLink","Typography","className","ErrorMessageStackTraceDialog","onClose","mappedStackTrace","setMappedStackTrace","useState","secondaryError","setSecondaryError","clicked","setClicked","errorText","stackTrace","trace","startsWith","slice","length","stripMessage","stack","useEffect","stackLines","split","mappedStack","line","match","push","originalPosition","originalPositionFor","Number","parseInt","column","source","trim","mapStackTrace","e","console","errorBoxText","window","JBrowseSession","version","filter","f","Dialog","open","title","maxWidth","DialogContent","LoadingEllipses","variant","DialogActions","Button","color","onClick","copy","setTimeout"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4659.b65d8547.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4659.b65d8547.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4704.9b3995ff.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4704.9b3995ff.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4704.9b3995ff.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4704.9b3995ff.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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onChange={event => {\\n setCopyTracks(event.target.checked)\\n }}\\n />\\n\\n <TextField\\n label=\\"Window size (bp)\\"\\n value={windowSize}\\n onChange={event => {\\n setWindowSize(event.target.value)\\n }}\\n />\\n </DialogContent>\\n <DialogActions>\\n <Button\\n onClick={() => {\\n const session = getSession(model)\\n // eslint-disable-next-line @typescript-eslint/no-floating-promises\\n ;(async () => {\\n try {\\n const assembly = session.assemblyManager.get(assemblyName)\\n const w = +windowSize\\n if (Number.isNaN(w)) {\\n throw new Error(\'windowSize not a number\')\\n }\\n const { refName, pos, mateRefName, matePos } =\\n // @ts-expect-error\\n viewType.getBreakendCoveringRegions({ feature, assembly })\\n\\n const breakpointSplitView = session.addView(\\n \'BreakpointSplitView\',\\n {\\n type: \'BreakpointSplitView\',\\n displayName: `${\\n feature.get(\'name\') || feature.get(\'id\') || \'breakend\'\\n } split detail`,\\n views: [\\n {\\n type: \'LinearGenomeView\',\\n 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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4741.5a289f5d.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4741.5a289f5d.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4741.5a289f5d.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4741.5a289f5d.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4753.834007ba.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4753.834007ba.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4753.834007ba.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4753.834007ba.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4755.8d938db2.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4755.8d938db2.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4755.8d938db2.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4755.8d938db2.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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The name should match what\n is defined in the plugin's build.\n </DialogContentText>\n <TextField\n label=\"Plugin name\"\n variant=\"outlined\"\n value={umdPluginName}\n onChange={event => {\n setUMDPluginName(event.target.value)\n }}\n />\n <TextField\n label=\"Plugin URL\"\n variant=\"outlined\"\n value={umdPluginUrl}\n onChange={event => {\n setUMDPluginUrl(event.target.value)\n }}\n />\n <DialogContentText\n onClick={() => {\n setAdvancedOptionsOpen(!advancedOptionsOpen)\n }}\n >\n <IconButton\n className={cx(classes.expand, {\n [classes.expandOpen]: advancedOptionsOpen,\n })}\n aria-expanded={advancedOptionsOpen}\n aria-label=\"show more\"\n >\n <ExpandMoreIcon />\n </IconButton>\n Advanced options\n </DialogContentText>\n <Collapse in={advancedOptionsOpen}>\n <div className={classes.dialogContent}>\n <DialogContentText>\n The above fields assume that the plugin is built in UMD format.\n If your plugin is in another format, or you have additional\n builds you want to add (such as a CJS build for using NodeJS\n APIs in desktop), you can enter the URLs for those builds below.\n </DialogContentText>\n <TextField\n label=\"ESM build URL\"\n variant=\"outlined\"\n value={esmPluginUrl}\n onChange={event => {\n setESMPluginUrl(event.target.value)\n }}\n />\n <TextField\n label=\"CJS build URL\"\n variant=\"outlined\"\n value={cjsPluginUrl}\n onChange={event => {\n setCJSPluginUrl(event.target.value)\n }}\n />\n </div>\n </Collapse>\n </DialogContent>\n <DialogActions>\n <Button variant=\"contained\" onClick={onClose}>\n Cancel\n </Button>\n <Button\n variant=\"contained\"\n color=\"primary\"\n onClick={handleSubmit}\n disabled={!ready}\n >\n Submit\n </Button>\n </DialogActions>\n </form>\n </Dialog>\n )\n})\n\nexport default AddCustomPluginDialog\n"],"names":["useStyles","makeStyles","theme","dialogContent","display","flexDirection","expand","transform","marginLeft","transition","transitions","create","duration","shortest","expandOpen","observer","onClose","model","classes","cx","umdPluginName","setUMDPluginName","useState","umdPluginUrl","setUMDPluginUrl","esmPluginUrl","setESMPluginUrl","cjsPluginUrl","setCJSPluginUrl","advancedOptionsOpen","setAdvancedOptionsOpen","jbrowse","getSession","ready","Boolean","handleSubmit","addPlugin","name","umdUrl","esmUrl","cjsUrl","React","Dialog","open","title","onSubmit","DialogContent","className","DialogContentText","TextField","label","variant","value","onChange","event","target","onClick","IconButton","ExpandMoreIcon","Collapse","in","DialogActions","Button","color","disabled"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4770.3d757d6b.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4770.3d757d6b.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[4770],{94770:(e,t,r)=>{r.r(t),r.d(t,{default:()=>u});var a=r(34133),s=r(46377),i=r(99546),n=r(99834),o=r(66885),c=r(82088),d=r(44728),g=r(80544);class h{constructor(e,t,r){this.record=e,this.adapter=t,this.ref=r}_get_name(){return this.record.get("name")}_get_type(){return"match"}_get_score(){return this.record.get("mq")}_get_flags(){return this.record.flags}_get_strand(){return this.record.isReverseComplemented()?-1:1}_get_pair_orientation(){return this.record.isPaired()?this.record.getPairOrientation():void 0}_get_next_ref(){return this.record.isPaired()?this.adapter.refIdToName(this.record._next_refid()):void 0}_get_next_pos(){return this.record.isPaired()?this.record._next_pos():void 0}_get_next_segment_position(){return this.record.isPaired()?`${this.adapter.refIdToName(this.record._next_refid())}:${this.record._next_pos()+1}`:void 0}_get_seq(){return this.record.getReadBases()}qualRaw(){return this.record.qualRaw()}set(){}tags(){const e=Object.getOwnPropertyNames(h.prototype);return[...new Set(e.filter((e=>e.startsWith("_get_")&&"_get_mismatches"!==e&&"_get_tags"!==e)).map((e=>e.replace("_get_",""))).concat(this.record._tags()))]}id(){return`${this.adapter.id}-${this.record.id()}`}get(e){const t=`_get_${e}`;return this[t]?this[t]():this.record.get(e)}_get_refName(){return this.adapter.refIdToName(this.record.seq_id())}parent(){}children(){}pairedFeature(){return!1}toJSON(){return{...Object.fromEntries(this.tags().map((e=>[e,this.get(e)])).filter((e=>void 0!==e[1]))),uniqueId:this.id()}}_get_mismatches(){return(0,g.getMismatches)(this.get("CIGAR"),this.get("MD"),this.get("seq"),this.ref,this.qualRaw())}_get_clipPos(){const e=this.get("CIGAR")||"";return(0,g.getClip)(e,this.get("strand"))}}class u extends s.BaseFeatureDataAdapter{async configurePre(){const e=this.getConf("bamLocation"),t=this.getConf(["index","location"]),r=this.getConf(["index","indexType"]),s=this.pluginManager,i="CSI"===r,o=new a.j9({bamFilehandle:(0,n.openLocation)(e,s),csiFilehandle:i?(0,n.openLocation)(t,s):void 0,baiFilehandle:i?void 0:(0,n.openLocation)(t,s),yieldThreadTime:Number.POSITIVE_INFINITY}),c=this.getConf("sequenceAdapter");if(c&&this.getSubAdapter){const{dataAdapter:e}=await this.getSubAdapter(c);return{bam:o,sequenceAdapter:e}}return{bam:o}}async configure(){return this.configureP||(this.configureP=this.configurePre().catch((e=>{throw this.configureP=void 0,e}))),this.configureP}async getHeader(e){const{bam:t}=await this.configure();return t.getHeaderText(e)}async setupPre(e){const{statusCallback:t=()=>{}}=e||{},{bam:r}=await this.configure();return this.samHeader=await(0,i.updateStatus)("Downloading index",t,(async()=>{const t=await r.getHeader(e),a=[],s={};return t?.filter((e=>"SQ"===e.tag)).forEach(((e,t)=>{const r=e.data.find((e=>"SN"===e.tag));if(r){const e=r.value;s[e]=t,a[t]=e}})),{idToName:a,nameToId:s}})),this.samHeader}async setup(e){return this.setupP||(this.setupP=this.setupPre(e).catch((e=>{throw this.setupP=void 0,e}))),this.setupP}async getRefNames(e){const{idToName:t}=await this.setup(e);return t}async seqFetch(e,t,r){const{sequenceAdapter:a}=await this.configure();if(!a)return;if(!e)return;const s=a.getFeatures({refName:e,start:t,end:r,assemblyName:""}),i=await(0,d._)(s.pipe((0,c.$)()));let n="";if(i.sort(((e,t)=>e.get("start")-t.get("start"))).forEach((e=>{const a=e.get("start"),s=e.get("end"),i=Math.max(t-a,0),o=Math.min(r-a,s-a)-i,c=e.get("seq")||e.get("residues");n+=c.slice(i,i+o)})),n.length!==r-t)throw new Error(`sequence fetch failed: fetching ${e}:${(t-1).toLocaleString()}-${r.toLocaleString()} returned ${n.length.toLocaleString()} bases, but should have returned ${(r-t).toLocaleString()}`);return n}getFeatures(e,t){const{refName:r,start:a,end:s,originalRefName:n}=e,{signal:c,filterBy:d,statusCallback:g=()=>{}}=t||{};return(0,o.ObservableCreate)((async e=>{const{bam:o}=await this.configure();await this.setup(t);const c=await(0,i.updateStatus)("Downloading alignments",g,(()=>o.getRecordsForRange(r,a,s,t)));await(0,i.updateStatus)("Processing alignments",g,(async()=>{const{flagInclude:t=0,flagExclude:a=0,tagFilter:s,readName:i}=d||{};for(const o of c){let c;o.get("MD")||(c=await this.seqFetch(n||r,o.get("start"),o.get("end")));const d=o.flags;if((d&t)===t||d&a){if(s){const e=o.get(s.tag),t=s.value;if("*"===t?void 0!==e:`${e}`!=`${t}`)continue}i&&o.get("name")!==i||e.next(new h(o,this,c))}}e.complete()}))}),c)}async getMultiRegionFeatureDensityStats(e,t){const{bam:r}=await this.configure();return r.index?{bytes:await(0,i.bytesForRegions)(e,r),fetchSizeLimit:this.getConf("fetchSizeLimit")}:super.getMultiRegionFeatureDensityStats(e,t)}freeResources(){}refIdToName(e){return this.samHeader?.idToName[e]}}}}]);
+//# sourceMappingURL=4770.3d757d6b.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4770.3d757d6b.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4770.3d757d6b.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4773.6cd74b80.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4773.6cd74b80.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4773.6cd74b80.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4773.6cd74b80.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4806.7e497d7a.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4806.7e497d7a.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[4806],{74806:(e,t,a)=>{a.r(t),a.d(t,{default:()=>p});var n=a(7552),l=a(68446),o=a(29499),r=a(36715),s=a(33371),c=a(32808),i=a(1343),u=a(58507),d=a(5401),g=a(49823),f=a(36422),m=a(99546),h=a(20561);const p=(0,l.observer)((function(e){const{model:t,handleClose:a}=e,[l,p]=(0,n.useState)(""),[b,E]=(0,n.useState)(),[k,v]=(0,n.useState)(!1),[y,w]=(0,n.useState)(),[C,S]=(0,n.useState)(!0),A=/^[A-Za-z][A-Za-z0-9]$/.exec(l),T=2===l.length&&!A,$=(0,m.useDebounce)(l,1e3);return(0,n.useEffect)((()=>{(async()=>{try{if(!T){w(void 0),v(!0);const e=await(0,h.s_)({self:t,tag:$,blocks:(0,m.getContainingView)(t).staticBlocks});E(e)}}catch(e){console.error(e),w(e)}finally{v(!1)}})()}),[t,T,$]),n.createElement(g.Dialog,{open:!0,onClose:a,title:"Group by tag"},n.createElement(o.A,null,n.createElement(r.A,null,"Set the tag to group by. NOTE: this will make a set of fully functional subtracks with the filter by by default set to the values of the tag that are visible in the current view"),n.createElement(r.A,{color:"textSecondary"},"Examples: HP for haplotype, RG for read group, etc."),n.createElement(s.A,{control:n.createElement(c.A,{checked:C,onChange:()=>{S(!C)}}),label:"Make a new subtrack for undefined values of tag as well?"}),n.createElement(i.A,{value:l,onChange:e=>{p(e.target.value)},placeholder:"Enter tag name",inputProps:{maxLength:2,"data-testid":"group-tag-name-input"},error:T,helperText:T?"Not a valid tag":"",autoComplete:"off","data-testid":"group-tag-name"}),y?n.createElement(g.ErrorMessage,{error:y}):k?n.createElement(g.LoadingEllipses,{title:"Loading unique tags"}):b?n.createElement("div",null,n.createElement("div",null,"Found unique ",l," values:"),n.createElement("div",null,b.join(", "))):null),n.createElement(u.A,null,n.createElement(d.A,{variant:"contained",color:"primary",type:"submit",disabled:!b,autoFocus:!0,onClick:()=>{const e=(0,m.getContainingTrack)(t),n=(o=(0,f.getSnapshot)(e.configuration),JSON.parse(JSON.stringify(o)));var o;const r=(0,m.getSession)(t);if(b){const e=[...b];C&&e.push(void 0);for(const a of e){const e=r.addTrackConf({...n,trackId:`${n.trackId}-${l}:${a}-${+Date.now()}-sessionTrack`,name:`${n.name} ${l}:${a}`,displays:void 0});(0,m.getContainingView)(t).showTrack(e.trackId).displays[0].setFilterBy({flagInclude:0,flagExclude:1540,tagFilter:{tag:l,value:a}})}}a()}},"Submit"),n.createElement(d.A,{variant:"contained",color:"secondary",onClick:()=>{a()}},"Cancel")))}))}}]);
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4806.7e497d7a.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4806.7e497d7a.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4861.6244e4c0.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4863.9dfed19c.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4863.9dfed19c.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4864.28cfc358.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4864.28cfc358.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4864.28cfc358.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4864.28cfc358.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/489.43cb4a5f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/489.43cb4a5f.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/489.43cb4a5f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/489.43cb4a5f.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/4902.452e575b.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4902.452e575b.chunk.js Sat Oct 05 23:58:05 2024 +0000

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4947.2e80fd2d.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4947.2e80fd2d.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4947.2e80fd2d.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4947.2e80fd2d.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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NativeSelect.propTypes /* remove-proptypes */ = {\n // ┌────────────────────────────── Warning ──────────────────────────────┐\n // │ These PropTypes are generated from the TypeScript type definitions. │\n // │ To update them, edit the d.ts file and run `pnpm proptypes`. │\n // └─────────────────────────────────────────────────────────────────────┘\n /**\n * The option elements to populate the select with.\n * Can be some `<option>` elements.\n */\n children: PropTypes.node,\n /**\n * Override or extend the styles applied to the component.\n * @default {}\n */\n classes: PropTypes.object,\n /**\n * @ignore\n */\n className: PropTypes.string,\n /**\n * The icon that displays the arrow.\n * @default ArrowDropDownIcon\n */\n IconComponent: PropTypes.elementType,\n /**\n * An `Input` element; does not have to be a material-ui specific `Input`.\n * @default <Input />\n */\n input: PropTypes.element,\n /**\n * [Attributes](https://developer.mozilla.org/en-US/docs/Web/HTML/Element/select#attributes) applied to the `select` element.\n */\n inputProps: PropTypes.object,\n /**\n * Callback fired when a menu item is selected.\n *\n * @param {React.ChangeEvent<HTMLSelectElement>} event The event source of the callback.\n * You can pull out the new value by accessing `event.target.value` (string).\n */\n onChange: PropTypes.func,\n /**\n * The system prop that allows defining system overrides as well as additional CSS styles.\n */\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\n /**\n * The `input` value. 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4974.cf97ef5b.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4974.cf97ef5b.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/4974.cf97ef5b.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/4974.cf97ef5b.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5008.f8d32f92.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5008.f8d32f92.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5008.f8d32f92.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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flex item properties to be used to lay out the children.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * If `true`, disables gutter padding.\\n * @default false\\n */\\n disableGutters: PropTypes.bool,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * The variant to use.\\n * @default \'regular\'\\n */\\n variant: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'dense\', \'regular\']), PropTypes.string])\\n} : void 0;\\nexport default Toolbar;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getToolbarUtilityClass(slot) {\\n return generateUtilityClass(\'MuiToolbar\', slot);\\n}\\nconst toolbarClasses = generateUtilityClasses(\'MuiToolbar\', [\'root\', \'gutters\', \'regular\', \'dense\']);\\nexport default toolbarClasses;"],"names":["circularRotateKeyframe","circularDashKeyframe","rotateAnimation","dashAnimation","CircularProgressRoot","name","slot","overridesResolver","props","styles","ownerState","root","variant","color","theme","display","variants","style","transition","transitions","create","animation","Object","entries","palette","filter","map","vars","main","CircularProgressSVG","svg","CircularProgressCircle","circle","disableShrink","circleDisableShrink","stroke","strokeDasharray","strokeDashoffset","inProps","ref","className","size","thickness","value","other","classes","slots","useUtilityClasses","circleStyle","rootStyle","rootProps","circumference","Math","PI","toFixed","round","transform","width","height","role","children","viewBox","cx","cy","r","fill","strokeWidth","getCircularProgressUtilityClass","mapEventPropToEvent","eventProp","substring","toLowerCase","ClickAwayListener","disableReactTree","mouseEvent","onClickAway","touchEvent","movedRef","nodeRef","activatedRef","syntheticEventRef","setTimeout","current","handleRef","handleClickAway","event","insideReactTree","doc","documentElement","clientWidth","clientX","clientHeight","clientY","clickedRootScrollbar","insideDOM","composedPath","includes","contains","target","createHandleSynthetic","handlerName","childrenPropsHandler","childrenProps","mappedTouchEvent","handleTouchMove","addEventListener","removeEventListener","mappedMouseEvent","ToolbarRoot","disableGutters","gutters","position","alignItems","paddingLeft","spacing","paddingRight","breakpoints","up","minHeight","mixins","toolbar","component","as","getToolbarUtilityClass"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/5031.6eccfd35.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5031.6eccfd35.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5090.bc77ac67.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5090.bc77ac67.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5099.14f82444.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5099.14f82444.chunk.js.LICENSE.txt
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5099.14f82444.chunk.js.LICENSE.txt Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,12 @@
+/*!
+ * Based on xzwasm (c) Steve Sanderson. License: MIT - https://github.com/SteveSanderson/xzwasm
+ * Contains xz-embedded by Lasse Collin and Igor Pavlov. License: Public domain - https://tukaani.org/xz/embedded.html
+ * and walloc (c) 2020 Igalia, S.L. License: MIT - https://github.com/wingo/walloc
+ */
+
+/*!
+ * Determine if an object is a Buffer
+ *
+ * @author Feross Aboukhadijeh <https://feross.org>
+ * @license MIT
+ */

diff -r 137e08517410 -r 49f3d3878413 x/static/js/5099.14f82444.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5099.14f82444.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5101.993a6b6e.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5101.993a6b6e.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5101.993a6b6e.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5132.00a31df0.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5132.00a31df0.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5132.00a31df0.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5132.00a31df0.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5156.75195722.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/518.7222a328.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/518.7222a328.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/518.7222a328.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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Skeleton.propTypes /* remove-proptypes */ = {\\n // \xe2\x94\x8c\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80 Warning \xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x90\\n // \xe2\x94\x82 These PropTypes are generated from the TypeScript type definitions. \xe2\x94\x82\\n // \xe2\x94\x82 To update them, edit the d.ts file and run `pnpm proptypes`. \xe2\x94\x82\\n // \xe2\x94\x94\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x98\\n /**\\n * The animation.\\n * If `false` the animation effect is disabled.\\n * @default \'pulse\'\\n */\\n animation: PropTypes.oneOf([\'pulse\', \'wave\', false]),\\n /**\\n * Optional children to infer width and height from.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * Height of the skeleton.\\n * Useful when you don\'t want to adapt the skeleton to a text element but for instance a card.\\n */\\n height: PropTypes.oneOfType([PropTypes.number, PropTypes.string]),\\n /**\\n * @ignore\\n */\\n style: PropTypes.object,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * The type of content that will be rendered.\\n * @default \'text\'\\n */\\n variant: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'circular\', \'rectangular\', \'rounded\', \'text\']), PropTypes.string]),\\n /**\\n * Width of the skeleton.\\n * Useful when the skeleton is inside an inline element with no width of its own.\\n */\\n width: PropTypes.oneOfType([PropTypes.number, PropTypes.string])\\n} : void 0;\\nexport default Skeleton;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getSkeletonUtilityClass(slot) {\\n return generateUtilityClass(\'MuiSkeleton\', slot);\\n}\\nconst skeletonClasses = generateUtilityClasses(\'MuiSkeleton\', [\'root\', \'text\', \'rectangular\', \'rounded\', \'circular\', \'pulse\', \'wave\', \'withChildren\', \'fitContent\', \'heightAuto\']);\\nexport default skeletonClasses;"],"names":["pulseKeyframe","waveKeyframe","pulseAnimation","waveAnimation","SkeletonRoot","name","slot","overridesResolver","props","styles","ownerState","root","variant","animation","hasChildren","withChildren","width","fitContent","height","heightAuto","theme","radiusUnit","shape","borderRadius","radiusValue","display","backgroundColor","vars","palette","Skeleton","bg","text","primary","mode","variants","style","marginTop","marginBottom","transformOrigin","transform","Math","round","content","visibility","maxWidth","position","overflow","WebkitMaskImage","background","action","hover","bottom","left","right","top","inProps","ref","className","component","other","Boolean","children","classes","slots","useUtilityClasses","as","getSkeletonUtilityClass"],"sourceRoot":""}\n\\ No newline at end of file\n'

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5189.3e22269d.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5189.3e22269d.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5243.9de20396.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5243.9de20396.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5255.af554ced.chunk.js.LICENSE.txt
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5255.af554ced.chunk.js.LICENSE.txt Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,58 @@
+/*!
+ * The buffer module from node.js, for the browser.
+ *
+ * @author Feross Aboukhadijeh <https://feross.org>
+ * @license MIT
+ */
+
+/*!
+ * escape-html
+ * Copyright(c) 2012-2013 TJ Holowaychuk
+ * Copyright(c) 2015 Andreas Lubbe
+ * Copyright(c) 2015 Tiancheng "Timothy" Gu
+ * MIT Licensed
+ */
+
+/*! @license DOMPurify 3.1.6 | (c) Cure53 and other contributors | Released under the Apache license 2.0 and Mozilla Public License 2.0 | github.com/cure53/DOMPurify/blob/3.1.6/LICENSE */
+
+/*! ieee754. BSD-3-Clause License. Feross Aboukhadijeh <https://feross.org/opensource> */
+
+/**
+ * @license React
+ * react-dom-server-legacy.browser.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/**
+ * @license React
+ * react-dom-server.browser.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/**
+ * @license React
+ * react-is.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/**
+ * @license React
+ * use-sync-external-store-shim.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */

diff -r 137e08517410 -r 49f3d3878413 x/static/js/5255.af554ced.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5260.e7b7aeb6.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5260.e7b7aeb6.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5260.e7b7aeb6.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5327.8f1dcfc1.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5331.28d667f0.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5331.28d667f0.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5331.28d667f0.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5369.993afa3f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5369.993afa3f.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5369.993afa3f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5369.993afa3f.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/5461.5c8cf5d1.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5461.5c8cf5d1.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5461.5c8cf5d1.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5484.3ceeebff.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5484.3ceeebff.chunk.js Sat Oct 05 23:58:05 2024 +0000

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+  0% {
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5484.3ceeebff.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5484.3ceeebff.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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flex item properties to be used to lay out the children.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * If `true`, disables gutter padding.\\n * @default false\\n */\\n disableGutters: PropTypes.bool,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * The variant to use.\\n * @default \'regular\'\\n */\\n variant: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'dense\', \'regular\']), PropTypes.string])\\n} : void 0;\\nexport 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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/5511.154ce441.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5511.154ce441.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5515.671905b2.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5595.b4517d69.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5595.b4517d69.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5595.b4517d69.chunk.js.LICENSE.txt
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5595.b4517d69.chunk.js.LICENSE.txt Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,7 @@
+/**
+ * @mui/x-data-grid v7.18.0
+ *
+ * @license MIT
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */

diff -r 137e08517410 -r 49f3d3878413 x/static/js/5595.b4517d69.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5608.1b8d39e1.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5608.1b8d39e1.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/561.8b38948f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/561.8b38948f.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/561.8b38948f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/561.8b38948f.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5640.33b8306c.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5640.33b8306c.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5640.33b8306c.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5668.73016b9c.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5668.73016b9c.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5668.73016b9c.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5676.818528e8.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5676.818528e8.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5676.818528e8.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5677.28a25579.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5677.28a25579.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5677.28a25579.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5677.28a25579.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5682.ea285a50.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5682.ea285a50.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5682.ea285a50.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5682.ea285a50.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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i < cigar.length; i++) {\\n const len = +cigar[i]!\\n const op = cigar[i + 1]!\\n const min = Math.min(len, startX - featX)\\n\\n if (featX >= startX) {\\n break\\n }\\n if (op === \'I\') {\\n mateX'..b'l1, featAsm),\\n view2.views[1]!.navToLocString(l2, mateAsm),\\n ])\\n}\\n","import React, { useState } from \'react\'\\nimport { Dialog } from \'@jbrowse/core/ui\'\\nimport { Feature, getSession } from \'@jbrowse/core/util\'\\nimport {\\n Button,\\n Checkbox,\\n DialogActions,\\n DialogContent,\\n FormControlLabel,\\n TextField,\\n} from \'@mui/material\'\\nimport { navToSynteny } from \'./util\'\\nimport { makeStyles } from \'tss-react/mui\'\\n\\nconst useStyles = makeStyles()({\\n padding: {\\n margin: 10,\\n border: \'1px solid #ccc\',\\n },\\n})\\n\\nexport default function LaunchSyntenyViewDialog({\\n model,\\n feature,\\n handleClose,\\n}: {\\n model: unknown\\n feature: Feature\\n handleClose: () => void\\n}) {\\n const { classes } = useStyles()\\n const inverted = feature.get(\'strand\') === -1\\n const [horizontallyFlip, setHorizontallyFlip] = useState(inverted)\\n const [windowSize, setWindowSize] = useState(\'1000\')\\n return (\\n <Dialog open title=\\"Launch synteny view\\" onClose={handleClose}>\\n <DialogContent>\\n {inverted ? (\\n <FormControlLabel\\n className={classes.padding}\\n control={\\n <Checkbox\\n checked={horizontallyFlip}\\n onChange={event => {\\n setHorizontallyFlip(event.target.checked)\\n }}\\n />\\n }\\n label=\\"Note: The feature is inverted in orientation on the target\\n sequence. This will result in the lower panel having genomic\\n coordinates decreasing left to right. Horizontally flip?\\"\\n />\\n ) : null}\\n <TextField\\n label=\\"Add window size in bp\\"\\n value={windowSize}\\n onChange={event => {\\n setWindowSize(event.target.value)\\n }}\\n />\\n </DialogContent>\\n <DialogActions>\\n <Button\\n variant=\\"contained\\"\\n onClick={() => {\\n // eslint-disable-next-line @typescript-eslint/no-floating-promises\\n ;(async () => {\\n try {\\n await navToSynteny({\\n feature,\\n windowSize: +windowSize,\\n horizontallyFlip,\\n model,\\n })\\n } catch (e) {\\n console.error(e)\\n getSession(model).notifyError(`${e}`, e)\\n }\\n })()\\n handleClose()\\n }}\\n >\\n Submit\\n </Button>\\n <Button\\n variant=\\"contained\\"\\n color=\\"secondary\\"\\n onClick={() => {\\n handleClose()\\n }}\\n >\\n Cancel\\n </Button>\\n </DialogActions>\\n </Dialog>\\n )\\n}\\n"],"names":["parseCigar","MismatchParser","f","n","Math","floor","findPosInCigar","cigar","startX","featX","mateX","i","length","len","op","min","useStyles","makeStyles","padding","margin","border","LaunchSyntenyViewDialog","model","feature","handleClose","classes","inverted","get","horizontallyFlip","setHorizontallyFlip","useState","windowSize","setWindowSize","React","Dialog","open","title","onClose","DialogContent","FormControlLabel","className","control","Checkbox","checked","onChange","event","target","label","TextField","value","DialogActions","Button","variant","onClick","async","ws","session","getSession","track","getContainingTrack","reg","getContainingView","dynamicBlocks","contentBlocks","Error","strand","regStart","start","regEnd","end","featStart","featEnd","mate","mateStart","mateEnd","mateAsm","assemblyName","mateRef","refName","featAsm","featRef","rMateStart","rMateEnd","rFeatStart","rFeatEnd","p","fStartX","mStartX","fEndX","mEndX","flipper","trackId","configuration","view2","addView","type","views","id","random","hideHeader","tracks","displays","l1","m1","m2","max","l2","Promise","all","navToLocString","navToSynteny","e","console","error","notifyError","color"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/5727.f7a524b6.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5727.f7a524b6.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5727.f7a524b6.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5727.f7a524b6.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5736.48705208.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5736.48705208.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5736.48705208.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5736.48705208.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5746.39e4296b.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5746.39e4296b.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5746.39e4296b.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5763.48010c9a.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5763.48010c9a.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5896.622b5e88.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5896.622b5e88.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5896.622b5e88.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5896.622b5e88.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
+{"version":3,"file":"static/js/5896.622b5e88.chunk.js","mappings":"2NAYA,MA4CA,GA5C+BA,E,SAAAA,WAAS,UAAgC,oBACtEC,EAAmB,QACnBC,EAAO,YACPC,IASA,MAAM,eAAEC,EAAc,KAAEC,GAASJ,EACjC,OACEK,EAAAA,cAACC,EAAAA,OAAM,CAACC,MAAI,EAACC,MAAO,sBAAsBJ,MACxCC,EAAAA,cAACI,EAAAA,EAAa,KACZJ,EAAAA,cAACK,EAAAA,EAAiB,KAAC,qDAIrBL,EAAAA,cAACM,EAAAA,EAAa,KACZN,EAAAA,cAACO,EAAAA,EAAM,CACLC,QAASA,KACPX,GAAa,EAEfY,MAAM,WACP,UAGDT,EAAAA,cAACO,EAAAA,EAAM,CACLG,QAAQ,YACRD,MAAM,UACND,QAASA,KACPZ,EAAQe,mBAAmBb,GAC3BD,GAAa,GAEhB,OAMT,G","sources":["../../../plugins/data-management/src/HierarchicalTrackSelectorWidget/components/dialogs/DeleteConnectionDialog.tsx"],"sourcesContent":["import React from 'react'\nimport {\n DialogContent,\n DialogContentText,\n DialogActions,\n Button,\n} from '@mui/material'\nimport { Dialog } from '@jbrowse/core/ui'\nimport { observer } from 'mobx-react'\nimport { AnyConfigurationModel } from '@jbrowse/core/configuration'\nimport { AbstractSessionModel } from '@jbrowse/core/util'\n\nconst DeleteConnectionDialog = observer(function DeleteConnectionDialog({\n deleteDialogDetails,\n session,\n handleClose,\n}: {\n deleteDialogDetails: {\n name: string\n connectionConf: AnyConfigurationModel\n }\n session: AbstractSessionModel\n handleClose: () => void\n}) {\n const { connectionConf, name } = deleteDialogDetails\n return (\n <Dialog open title={`Delete connection \"${name}\"`}>\n <DialogContent>\n <DialogContentText>\n Are you sure you want to delete this connection?\n </DialogContentText>\n </DialogContent>\n <DialogActions>\n <Button\n onClick={() => {\n handleClose()\n }}\n color=\"primary\"\n >\n Cancel\n </Button>\n <Button\n variant=\"contained\"\n color=\"primary\"\n onClick={() => {\n session.deleteConnection?.(connectionConf)\n handleClose()\n }}\n >\n OK\n </Button>\n </DialogActions>\n </Dialog>\n )\n})\n\nexport default DeleteConnectionDialog\n"],"names":["observer","deleteDialogDetails","session","handleClose","connectionConf","name","React","Dialog","open","title","DialogContent","DialogContentText","DialogActions","Button","onClick","color","variant","deleteConnection"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/5903.9145cef7.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5903.9145cef7.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/5903.9145cef7.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5903.9145cef7.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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onChange={event => {\\n setCopyTracks(event.target.checked)\\n }}\\n />\\n\\n <TextField\\n label=\\"Window size (bp)\\"\\n value={windowSize}\\n onChange={event => {\\n setWindowSize(event.target.value)\\n }}\\n />\\n </DialogContent>\\n <DialogActions>\\n <Button\\n onClick={() => {\\n const session = getSession(model)\\n // eslint-disable-next-line @typescript-eslint/no-floating-promises\\n ;(async () => {\\n try {\\n const assembly = session.assemblyManager.get(assemblyName)\\n const w = +windowSize\\n if (Number.isNaN(w)) {\\n throw new Error(\'windowSize not a number\')\\n }\\n const { refName, pos, mateRefName, matePos } =\\n // @ts-expect-error\\n viewType.getBreakendCoveringRegions({ feature, assembly })\\n\\n const breakpointSplitView = session.addView(\\n \'BreakpointSplitView\',\\n {\\n type: \'BreakpointSplitView\',\\n displayName: `${\\n feature.get(\'name\') || feature.get(\'id\') || \'breakend\'\\n } split detail`,\\n views: [\\n {\\n type: \'LinearGenomeView\',\\n tracks: stripIds(getSnapshot(view.tracks)),\\n },\\n ],\\n },\\n ) as unknown as { views: LinearGenomeViewModel[] }\\n\\n await breakpointSplitView.views[0]!.navToLocations(\\n gatherOverlaps(\\n [\\n {\\n refName,\\n start: Math.max(0, pos - w),\\n end: pos + w,\\n assemblyName,\\n },\\n {\\n refName: mateRefName,\\n start: Math.max(0, matePos - w),\\n end: matePos + w,\\n assemblyName,\\n },\\n ],\\n w,\\n ),\\n )\\n } catch (e) {\\n console.error(e)\\n session.notify(`${e}`)\\n }\\n })()\\n handleClose()\\n }}\\n variant=\\"contained\\"\\n color=\\"primary\\"\\n autoFocus\\n >\\n OK\\n </Button>\\n <Button\\n color=\\"secondary\\"\\n variant=\\"contained\\"\\n onClick={() => {\\n handleClose()\\n }}\\n >\\n Cancel\\n </Button>\\n </DialogActions>\\n </Dialog>\\n )\\n})\\n\\nexport default 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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/5904.240caa72.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5904.240caa72.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

b'@@ -0,0 +1,2 @@\n+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[5904,7706],{35904:(e,t,n)=>{n.r(t),n.d(t,{default:()=>p});var r=n(46377),a=n(32595),s=n(99834),o=n(66885),i=n(99546),c=n(68584),l=n(7706),h=n(82727),d=n(72147),u=n(78054);function f(e){const[t,n]=e.reduce((([e,t],[n,r])=>[e+n*r,t+r]),[0,0]);return t/n}const{parseCigar:m}=h.aF;class p extends r.BaseFeatureDataAdapter{static capabilities=["getFeatures","getRefNames"];async setup(e){return this.setupP||(this.setupP=this.setupPre(e).catch((e=>{throw this.setupP=void 0,e}))),this.setupP}async setupPre(e){const t=this.pluginManager,n=(0,s.openLocation)(this.getConf("pafLocation"),t),r=await n.readFile(e),a=(0,i.isGzip)(r)?await(0,l.unzip)(r):r;return(0,u.PX)(a,u.xI)}async hasDataForRefName(){return!0}getAssemblyNames(){const e=this.getConf("assemblyNames");return 0===e.length?[this.getConf("queryAssembly"),this.getConf("targetAssembly")]:e}async getRefNames(e={}){const 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o=this.getAssemblyNames(),{start:i,end:l,refName:h,assemblyName:p}=e,g=o.indexOf(p),w=0===g;-1===g&&(console.warn(`${p} not found in this adapter`),n.complete());for(let e=0;e<r.length;e++){const t=r[e];let s=0,c=0,f="",g="",b=0,y=0;w?(s=t.qstart,c=t.qend,f=t.qname,g=t.tname,b=t.tstart,y=t.tend):(s=t.tstart,c=t.tend,f=t.tname,g=t.qname,b=t.qstart,y=t.qend);const{extra:x,strand:k}=t;if(f===h&&(0,a.R6)(i,l,s,c)){const{numMatches:t=0,blockLen:r=1,cg:a,...i}=x;let l=x.cg;x.cg&&(w&&-1===k?l=(0,u.qm)(m(x.cg)).join(""):w&&(l=(0,u.gJ)(x.cg))),n.next(new d.A({uniqueId:e+p,assemblyName:p,start:s,end:c,type:"match",refName:f,strand:k,...i,CIGAR:l,syntenyId:e,identity:t/r,numMatches:t,blockLen:r,mate:{start:b,end:y,refName:g,assemblyName:o[+w]}}))}}n.complete()}))}freeResources(){}}},72147:(e,t,n)=>{n.d(t,{A:()=>o});var r=n(99546),a=n(82727);const{getMismatches:s}=a.aF;class o extends 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5904.240caa72.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5904.240caa72.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5930.0ffd2546.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5930.0ffd2546.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5930.0ffd2546.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5930.0ffd2546.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/5951.251be759.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5951.251be759.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5951.251be759.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5951.251be759.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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RadioGroup.propTypes /* remove-proptypes */ = {\n // ┌────────────────────────────── Warning ──────────────────────────────┐\n // │ These PropTypes are generated from the TypeScript type definitions. │\n // │ To update them, edit the d.ts file and run `pnpm proptypes`. │\n // └─────────────────────────────────────────────────────────────────────┘\n /**\n * The content of the component.\n */\n children: PropTypes.node,\n /**\n * @ignore\n */\n className: PropTypes.string,\n /**\n * The default value. 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/596.84c38eb7.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/596.84c38eb7.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/596.84c38eb7.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5998.22bd8296.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/5998.22bd8296.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/5998.22bd8296.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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jb2Features,\\n }\\n jb2TrackConfig.type = \'FeatureTrack\'\\n return jb2TrackConfig\\n}\\n\\nexport async function createRefSeqsAdapter(\\n refSeqs: string | RefSeqs,\\n): Promise<Jb2Adapter> {\\n if (typeof refSeqs === \'string\') {\\n // assume refSeqs is a url if it is string\\n refSeqs = {\\n url: refSeqs,\\n }\\n }\\n\\n // check refseq urls\\n if (refSeqs.url) {\\n if (/.fai$/.exec(refSeqs.url)) {\\n return {\\n type: \'IndexedFastaAdapter\',\\n fastaLocation: {\\n uri: refSeqs.url.slice(0, -4),\\n locationType: \'UriLocation\',\\n },\\n faiLocation: {\\n uri: refSeqs.url,\\n locationType: \'UriLocation\',\\n },\\n }\\n }\\n if (/.2bit$/.exec(refSeqs.url)) {\\n return {\\n type: \'TwoBitAdapter\',\\n twoBitLocation: { uri: refSeqs.url, locationType: \'UriLocation\' },\\n }\\n }\\n if (/.fa$/.exec(refSeqs.url)) {\\n throw new Error(\'Unindexed FASTA adapter not available\')\\n }\\n if (/.sizes/.exec(refSeqs.url)) {\\n throw new Error(\'chromosome SIZES adapter not available\')\\n 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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/6021.21769087.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6021.21769087.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6021.21769087.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6021.21769087.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/6043.e402bf73.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6043.e402bf73.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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+//# sourceMappingURL=6043.e402bf73.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/6043.e402bf73.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6043.e402bf73.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6054.e0881c55.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6054.e0881c55.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6054.e0881c55.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6149.c6c4af73.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6157.96f40683.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6214.0ed0ac32.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6214.0ed0ac32.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6235.93768761.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6235.93768761.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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+//# sourceMappingURL=6235.93768761.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/6235.93768761.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6235.93768761.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/6310.ae82dc58.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6310.ae82dc58.chunk.js Sat Oct 05 23:58:05 2024 +0000

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e=g.length;a[s++]={start:n,type:"softclip",base:`S${e}`,cliplen:e,length:1}}else if("P"===h);else if("H"===h){const e=g;a[s++]={start:n,type:"hardclip",base:`H${e}`,cliplen:e,length:1}}else"D"===h?a[s++]={type:"deletion",length:g,start:n,base:"*"}:"b"===h||"q"===h'..b'+]={start:n,type:"insertion",base:`${i}`,length:0},i=0),a.slice(0,s)}(e,this.get("start"),t)}}class u extends s.BaseFeatureDataAdapter{samHeader={};seqIdToOriginalRefName=[];async configurePre(){const e=this.getConf("cramLocation"),t=this.getConf("craiLocation"),r=this.pluginManager,s=new a.bQ({cramFilehandle:(0,n.openLocation)(e,r),index:new a.Wb({filehandle:(0,n.openLocation)(t,r)}),seqFetch:(...e)=>this.seqFetch(...e),checkSequenceMD5:!1});if(!this.getSubAdapter)throw new Error("Error getting subadapter");const i=this.getConf("sequenceAdapter");if(!i)throw new Error("no sequenceAdapter supplied to CramAdapter config");return{cram:s,sequenceAdapter:(await this.getSubAdapter(i)).dataAdapter}}async configure(){return this.configureP||(this.configureP=this.configurePre().catch((e=>{throw this.configureP=void 0,e}))),this.configureP}async getHeader(e){const{cram:t}=await this.configure();return t.cram.getHeaderText()}async seqFetch(e,t,r){t-=1;const{sequenceAdapter:a}=await this.configure(),s=this.refIdToOriginalName(e)||this.refIdToName(e);if(!s)throw new Error("unknown");const n=(await(0,d._)(a.getFeatures({refName:s,start:t,end:r,assemblyName:""}).pipe((0,c.$)()))).sort(((e,t)=>e.get("start")-t.get("start"))).map((e=>{const a=e.get("start"),s=e.get("end"),i=Math.max(t-a,0),n=Math.min(r-a,s-a)-i;return(e.get("seq")||e.get("residues")).slice(i,i+n)})).join(""),o=r-t;if(n.length!==o)throw new Error(`fetching ${s}:${(0,i.toLocale)(t-1)}-${(0,i.toLocale)(r)} returned ${(0,i.toLocale)(n.length)} bases, should have returned ${(0,i.toLocale)(o)}`);return n}async setupPre(e){const{statusCallback:t=()=>{}}=e||{};return(0,i.updateStatus)("Downloading index",t,(async()=>{const e=await this.configure(),{cram:t}=e,r=await t.cram.getSamHeader(),a=[],s={};r.filter((e=>"SQ"===e.tag)).forEach(((e,t)=>{const r=e.data.find((e=>"SN"===e.tag));if(r){const e=r.value;s[e]=t,a[t]=e}}));const i=r.filter((e=>"RG"===e.tag)).map((e=>e.data.find((e=>"ID"===e.tag))?.value)),n={idToName:a,nameToId:s,readGroups:i};return this.samHeader=n,{samHeader:n,...e}}))}async setup(e){return this.setupP||(this.setupP=this.setupPre(e).catch((e=>{throw this.setupP=void 0,e}))),this.setupP}async getRefNames(e){const{samHeader:t}=await this.setup(e);if(!t.idToName)throw new Error("CRAM file has no header lines");return t.idToName}refNameToId(e){return this.samHeader.nameToId?this.samHeader.nameToId[e]:this.seqIdToRefName?this.seqIdToRefName.indexOf(e):void 0}refIdToName(e){return this.samHeader.idToName?.[e]||this.seqIdToRefName?.[e]}refIdToOriginalName(e){return this.seqIdToOriginalRefName[e]}getFeatures(e,t){const{signal:r,filterBy:a,statusCallback:s=()=>{}}=t||{},{refName:n,start:c,end:d,originalRefName:h}=e;return(0,o.ObservableCreate)((async e=>{const{cram:o,samHeader:u}=await this.setup(t),g=this.refNameToId(n);if(void 0===g)return console.warn("Unknown refName",n),void e.complete();h&&(this.seqIdToOriginalRefName[g]=h);const l=await(0,i.updateStatus)("Downloading alignments",s,(()=>o.getRecordsForRange(g,c,d)));(0,i.checkAbortSignal)(r),await(0,i.updateStatus)("Processing alignments",s,(()=>{const{flagInclude:t=0,flagExclude:r=0,tagFilter:s,readName:i}=a||{};for(const a of l){const n=a.flags;if((n&t)===t||n&r){if(s){const e="RG"===s.tag?u.readGroups?.[a.readGroupId]:a.tags[s.tag],t=s.value;if("*"===t?void 0!==e:`${e}`!=`${t}`)continue}i&&a.readName!==i||e.next(this.cramRecordToFeature(a))}}e.complete()}))}),r)}freeResources(){}cramRecordToFeature(e){return new h(e,this)}async getMultiRegionFeatureDensityStats(e,t){return{bytes:await this.bytesForRegions(e,t),fetchSizeLimit:this.getConf("fetchSizeLimit")}}async bytesForRegions(e,t){const{cram:r}=await this.configure();return(await Promise.all(e.map((e=>{const{refName:t,start:a,end:s}=e,i=this.refNameToId(t);return void 0!==i?r.index.getEntriesForRange(i,a,s):[{sliceBytes:0}]})))).flat().reduce(((e,t)=>e+t.sliceBytes),0)}}},81239:()=>{}}]);\n+//# sourceMappingURL=6391.aabba4a1.chunk.js.map\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/6391.aabba4a1.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6391.aabba4a1.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6395.f6027b24.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6395.f6027b24.chunk.js Sat Oct 05 23:58:05 2024 +0000

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6397.8fc250af.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6397.8fc250af.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6423.1e8da08b.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6435.b4633aa1.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6499.aac79904.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6514.d36ecbb8.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6514.d36ecbb8.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6514.d36ecbb8.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6526.b2c8fd93.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6526.b2c8fd93.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6621.cf64e54c.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6621.cf64e54c.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6621.cf64e54c.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6621.cf64e54c.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/6658.fe512b5a.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6658.fe512b5a.chunk.js Sat Oct 05 23:58:05 2024 +0000

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* as React from \'react\';\\n/**\\n * Provides information about the current step in Stepper.\\n */\\nconst StepContext = /*#__PURE__*/React.createContext({});\\nif (process.env.NODE_ENV !== \'production\') {\\n StepContext.displayName = \'StepContext\';\\n}\\n\\n/**\\n * Returns the current StepContext or an empty object if no StepContext\\n * has been defined in the component tree.\\n */\\nexport function useStepContext() {\\n return React.useContext(StepContext);\\n}\\nexport default StepContext;","\'use client\';\\n\\nimport * as React from \'react\';\\nimport PropTypes from \'prop-types\';\\nimport clsx from \'clsx\';\\nimport composeClasses from \'@mui/utils/composeClasses\';\\nimport capitalize from \\"../utils/capitalize.js\\";\\nimport { styled } from \\"../zero-styled/index.js\\";\\nimport memoTheme from \\"../utils/memoTheme.js\\";\\nimport { useDefaultProps } from \\"../DefaultPropsProvider/index.js\\";\\nimport StepperContext from 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6683.2a35f0fe.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6703.faa93a20.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6703.faa93a20.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6746.8d3f75be.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6785.07d4b66b.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6785.07d4b66b.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6799.754a77ae.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6799.754a77ae.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6823.6e35b0cf.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6823.6e35b0cf.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6823.6e35b0cf.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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readVal !== undefined\\n : `${readVal}` !== `${filterVal}`\\n ) {\\n continue\\n }\\n }\\n\\n if (readName && record.get(\'name\') !== readName) {\\n continue\\n }\\n\\n observer.next(new BamSlightlyLazyFeature(record, this, ref))\\n }\\n observer.complete()\\n })\\n }, signal)\\n }\\n\\n async getMultiRegionFeatureDensityStats(\\n regions: Region[],\\n opts?: BaseOptions,\\n ) {\\n const { bam } = await this.configure()\\n // this is a method to avoid calling on htsget adapters\\n if (bam.index) {\\n const bytes = await bytesForRegions(regions, bam)\\n const fetchSizeLimit = this.getConf(\'fetchSizeLimit\')\\n return { bytes, fetchSizeLimit }\\n }\\n return super.getMultiRegionFeatureDensityStats(regions, opts)\\n }\\n\\n freeResources(/* { region } */): void {}\\n\\n // depends on setup being called before the BAM constructor\\n refIdToName(refId: number) {\\n return this.samHeader?.idToName[refId]\\n }\\n}\\n","import { BamFile, HtsgetFile } from \'@gmod/bam\'\\nimport { BaseFeatureDataAdapter } from \'@jbrowse/core/data_adapters/BaseAdapter\'\\nimport BamAdapter from \'../BamAdapter/BamAdapter\'\\n\\nexport default class HtsgetBamAdapter extends BamAdapter {\\n protected async configurePre() {\\n const htsgetBase = this.getConf(\'htsgetBase\')\\n const htsgetTrackId = this.getConf(\'htsgetTrackId\')\\n const bam = new HtsgetFile({\\n baseUrl: htsgetBase,\\n trackId: htsgetTrackId,\\n }) as unknown as BamFile\\n\\n const adapterConfig = this.getConf(\'sequenceAdapter\')\\n if (adapterConfig && this.getSubAdapter) {\\n const adapter = await this.getSubAdapter(adapterConfig)\\n return {\\n bam,\\n sequenceAdapter: adapter.dataAdapter as BaseFeatureDataAdapter,\\n }\\n }\\n return { bam }\\n }\\n}\\n"],"names":["BamSlightlyLazyFeature","constructor","record","adapter","ref","_get_name","this","get","_get_type","_get_score","_get_flags","flags","_get_strand","isReverseComplemented","_get_pair_orientation","isPaired","getPairOrientation","undefined","_get_next_ref","refIdToName","_next_refid","_get_next_pos","_next_pos","_get_next_segment_position","_get_seq","getReadBases","qualRaw","set","tags","properties","Object","getOwnPropertyNames","prototype","Set","filter","prop","startsWith","map","methodName","replace","concat","_tags","id","field","_get_refName","seq_id","parent","children","pairedFeature","toJSON","fromEntries","t","elt","uniqueId","_get_mismatches","getMismatches","_get_clipPos","cigar","getClip","BamAdapter","BaseFeatureDataAdapter","configurePre","bamLocation","getConf","location","indexType","pm","pluginManager","csi","bam","BamFile","bamFilehandle","openLocation","csiFilehandle","baiFilehandle","yieldThreadTime","Number","POSITIVE_INFINITY","adapterConfig","getSubAdapter","dataAdapter","sequenceAdapter","configure","configureP","catch","e","getHeader","opts","getHeaderText","setupPre","statusCallback","samHeader","updateStatus","async","idToName","nameToId","l","tag","forEach","sqLine","refId","SN","data","find","item","refName","value","setup","setupP","getRefNames","seqFetch","start","end","features","getFeatures","assemblyName","seqChunks","firstValueFrom","pipe","toArray","sequence","sort","a","b","chunk","chunkStart","chunkEnd","trimStart","Math","max","trimLength","min","chunkSeq","slice","length","Error","toLocaleString","region","originalRefName","signal","filterBy","ObservableCreate","records","getRecordsForRange","flagInclude","flagExclude","tagFilter","readName","readVal","filterVal","observer","next","complete","getMultiRegionFeatureDensityStats","regions","index","bytes","bytesForRegions","fetchSizeLimit","super","freeResources","HtsgetBamAdapter","htsgetBase","htsgetTrackId","HtsgetFile","baseUrl","trackId"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/6833.c77c5928.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6833.c77c5928.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[6833],{86833:(e,t,s)=>{s.r(t),s.d(t,{default:()=>c,makeFeatures:()=>u});var a=s(46377),r=s(6434),n=s(66885),o=s(68584);function u(e){const t=new Map;for(const s of e){const e=new r.A(s),a=e.get("refName");let n=t.get(a);n||(n=[],t.set(a,n)),n.push(e)}for(const e of t.values())e.sort(((e,t)=>e.get("start")-t.get("start")));return t}class c extends a.BaseFeatureDataAdapter{constructor(e,t,s){super(e,t,s);const a=(0,o.readConfObject)(e,"features");this.features=u(a)}async getRefNames(){return[...this.features.keys()]}async getRefNameAliases(){return[...this.features.values()].map((e=>({refName:e[0].get("refName"),aliases:e[0].get("aliases")})))}getFeatures(e){const{refName:t,start:s,end:a}=e;return(0,n.ObservableCreate)((async e=>{const r=this.features.get(t)||[];for(const t of r)t.get("end")>s&&t.get("start")<a&&e.next(t);e.complete()}))}freeResources(){}}}}]);
+//# sourceMappingURL=6833.c77c5928.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6833.c77c5928.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6833.c77c5928.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/6834.bc9e9f2b.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6834.bc9e9f2b.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[6834],{6834:(e,t,r)=>{r.r(t),r.d(t,{default:()=>d});var s=r(93902),a=r(60972),n=r(46377),i=r(99834),o=r(66885),c=r(99546),u=r(4101);class d extends n.BaseFeatureDataAdapter{async configurePre(e){const t=this.pluginManager,r=new s.C({filehandle:(0,i.openLocation)(this.getConf("bigBedLocation"),t)}),n=await r.getHeader(e);return{bigbed:r,header:n,parser:new a.A({autoSql:n.autoSql})}}async configure(e){return this.cached||(this.cached=this.configurePre(e).catch((e=>{throw this.cached=void 0,e}))),this.cached}async getRefNames(e){const{header:t}=await this.configure(e);return Object.keys(t.refsByName)}async getHeader(e){const{parser:t,header:r}=await this.configure(e),{version:s,fileType:a}=r,{fields:n,...i}=t.autoSql;return{version:s,fileType:a,autoSql:{...i},fields:Object.fromEntries(n.map((({name:e,comment:t})=>[e,t])))}}async 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6834.bc9e9f2b.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6837.a706c464.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6837.a706c464.chunk.js Sat Oct 05 23:58:05 2024 +0000

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6861.66a2e4c0.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6932.a37ea756.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6932.a37ea756.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6932.a37ea756.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6932.a37ea756.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6946.dd09a891.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6946.dd09a891.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6946.dd09a891.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6946.dd09a891.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6999.3486cca0.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6999.3486cca0.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/6999.3486cca0.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/6999.3486cca0.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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(\\n <GenomicSequence feature={feature} model={model} sequence={seq} />\\n ) : mode === \'genomic_sequence_updownstream\' ? (\\n <GenomicSequence\\n model={model}\\n feature={feature}\\n sequence={seq}\\n upstream={upstream}\\n downstream={downstream}\\n />\\n ) : mode === \'cds\' ? (\\n <CDSSequence model={model} cds={cds} sequence={seq} />\\n ) : mode === \'cdna\' ? (\\n <CDNASequence\\n model={model}\\n exons={exons}\\n feature={feature}\\n cds={cds}\\n utr={utr}\\n sequence={seq}\\n />\\n ) : mode === \'protein\' ? (\\n <ProteinSequence\\n model={model}\\n cds={cds}\\n codonTable={codonTable}\\n sequence={seq}\\n />\\n ) : mode === \'gene\' ? (\\n <CDNASequence\\n model={model}\\n exons={exons}\\n feature={feature}\\n cds={cds}\\n utr={utr}\\n sequence={seq}\\n includeIntrons\\n />\\n ) : mode === \'gene_collapsed_intron\' ? 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7013.5240d550.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7013.5240d550.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[7013,6833],{86833:(e,t,s)=>{s.r(t),s.d(t,{default:()=>c,makeFeatures:()=>u});var a=s(46377),r=s(6434),n=s(66885),o=s(68584);function u(e){const t=new Map;for(const s of e){const e=new r.A(s),a=e.get("refName");let n=t.get(a);n||(n=[],t.set(a,n)),n.push(e)}for(const e of t.values())e.sort(((e,t)=>e.get("start")-t.get("start")));return t}class c extends a.BaseFeatureDataAdapter{constructor(e,t,s){super(e,t,s);const a=(0,o.readConfObject)(e,"features");this.features=u(a)}async getRefNames(){return[...this.features.keys()]}async getRefNameAliases(){return[...this.features.values()].map((e=>({refName:e[0].get("refName"),aliases:e[0].get("aliases")})))}getFeatures(e){const{refName:t,start:s,end:a}=e;return(0,n.ObservableCreate)((async e=>{const r=this.features.get(t)||[];for(const t of r)t.get("end")>s&&t.get("start")<a&&e.next(t);e.complete()}))}freeResources(){}}},97013:(e,t,s)=>{s.r(t),s.d(t,{default:()=>c});var a=s(6434),r=s(66885),n=s(82088),o=s(86833),u=s(44728);class c extends o.default{getFeatures(e){return(0,r.ObservableCreate)((async t=>{const s=(await(0,u._)(super.getFeatures(e).pipe((0,n.$)())))[0];t.next(new a.A({...s.toJSON(),uniqueId:`${s.id()}:${e.start}-${e.end}`,end:e.end,start:e.start,seq:s.get("seq").slice(Math.max(e.start-s.get("start"),0),Math.max(e.end-s.get("start"),0))})),t.complete()}))}async getRegions(){const e=[];for(const[t,s]of this.features){let a;for(const r of s)a&&a.end>=r.get("start")&&a.start<=r.get("end")?a.end=r.get("end"):(a&&e.push(a),a={refName:t,start:r.get("start"),end:r.get("end")});a&&e.push(a)}return e}freeResources(){}}}}]);
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7013.5240d550.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7013.5240d550.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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b.get('start'))\n }\n\n return features\n}\n\nexport default class FromConfigAdapter extends BaseFeatureDataAdapter {\n protected features: Map<string, Feature[]>\n\n constructor(\n conf: AnyConfigurationModel,\n getSubAdapter?: getSubAdapterType,\n pluginManager?: PluginManager,\n ) {\n super(conf, getSubAdapter, pluginManager)\n const feats = readConfObject(conf, 'features') as SimpleFeatureSerialized[]\n this.features = makeFeatures(feats)\n }\n\n async getRefNames() {\n return [...this.features.keys()]\n }\n\n async getRefNameAliases() {\n return [...this.features.values()].map(featureArray => ({\n refName: featureArray[0]!.get('refName'),\n aliases: featureArray[0]!.get('aliases'),\n }))\n }\n\n getFeatures(region: NoAssemblyRegion) {\n const { refName, start, end } = region\n\n return ObservableCreate<Feature>(async observer => {\n const features = this.features.get(refName) || []\n for (const f of features) {\n if (f.get('end') > start && f.get('start') < end) {\n observer.next(f)\n }\n }\n observer.complete()\n })\n }\n\n freeResources(/* { region } */): void {}\n}\n","import SimpleFeature, { Feature } from '@jbrowse/core/util/simpleFeature'\nimport { ObservableCreate } from '@jbrowse/core/util/rxjs'\nimport { NoAssemblyRegion } from '@jbrowse/core/util/types'\nimport { toArray } from 'rxjs/operators'\nimport { RegionsAdapter } from '@jbrowse/core/data_adapters/BaseAdapter'\n\n// locals\nimport FromConfigAdapter from '../FromConfigAdapter/FromConfigAdapter'\nimport { firstValueFrom } from 'rxjs'\n\nexport default class FromConfigSequenceAdapter\n extends FromConfigAdapter\n implements RegionsAdapter\n{\n /**\n * Fetch features for a certain region\n * @param region - Region\n * @returns Observable of Feature objects in the region\n */\n getFeatures(region: NoAssemblyRegion) {\n return ObservableCreate<Feature>(async observer => {\n const feats = await firstValueFrom(\n super.getFeatures(region).pipe(toArray()),\n )\n const feat = feats[0]!\n observer.next(\n new SimpleFeature({\n ...feat.toJSON(),\n uniqueId: `${feat.id()}:${region.start}-${region.end}`,\n end: region.end,\n start: region.start,\n seq: feat\n .get('seq')\n .slice(\n Math.max(region.start - feat.get('start'), 0),\n Math.max(region.end - feat.get('start'), 0),\n ),\n }),\n )\n\n observer.complete()\n })\n }\n\n /**\n * Get refName, start, and end for all features after collapsing any overlaps\n */\n async getRegions() {\n const regions = []\n\n // recall: features are stored in this object sorted by start coordinate\n for (const [refName, features] of this.features) {\n let currentRegion:\n | { start: number; end: number; refName: string }\n | undefined\n for (const feature of features) {\n if (\n currentRegion &&\n currentRegion.end >= feature.get('start') &&\n currentRegion.start <= feature.get('end')\n ) {\n currentRegion.end = feature.get('end')\n } else {\n if (currentRegion) {\n regions.push(currentRegion)\n }\n currentRegion = {\n refName,\n start: feature.get('start'),\n end: feature.get('end'),\n }\n }\n }\n if (currentRegion) {\n regions.push(currentRegion)\n }\n }\n\n return regions\n }\n\n /**\n * called to provide a hint that data tied to a certain region\n * will not be needed for the foreseeable future and can be purged\n * from caches, etc\n */\n freeResources(/* { region } */): void {}\n}\n"],"names":["makeFeatures","fdata","features","Map","entry","f","SimpleFeature","refName","get","bucket","set","push","refFeatures","values","sort","a","b","FromConfigAdapter","BaseFeatureDataAdapter","constructor","conf","getSubAdapter","pluginManager","super","feats","readConfObject","this","getRefNames","keys","getRefNameAliases","map","featureArray","aliases","getFeatures","region","start","end","ObservableCreate","async","observer","next","complete","freeResources","FromConfigSequenceAdapter","feat","firstValueFrom","pipe","toArray","toJSON","uniqueId","id","seq","slice","Math","max","getRegions","regions","currentRegion","feature"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7067.e9508417.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7067.e9508417.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[7067],{37067:(b,e,s)=>{s.r(e),s.d(e,{default:()=>a.A});var a=s(26993)}}]);
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7087.79101e8e.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7087.79101e8e.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7087.79101e8e.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7117.b3239756.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7117.b3239756.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7126.b4b7d70b.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7126.b4b7d70b.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7126.b4b7d70b.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7126.b4b7d70b.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7181.938de865.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7181.938de865.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7181.938de865.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7181.938de865.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7203.03e2b86a.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7203.03e2b86a.chunk.js Sat Oct 05 23:58:05 2024 +0000

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+  0% {
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+  }
+
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+    transform: rotate(360deg);
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+`,f="string"!=typeof m?o.AH`
+        animation: ${m} 1.4s linear infinite;
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+        animation: ${v} 1.4s ease-in-out infinite;
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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7203.03e2b86a.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7203.03e2b86a.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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PropTypes.string,\\n /**\\n * The color of the component.\\n * It supports both default and custom theme colors, which can be added as shown in the\\n * [palette customization guide](https://mui.com/material-ui/customization/palette/#custom-colors).\\n * @default \'primary\'\\n */\\n color: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'inherit\', \'primary\', \'secondary\', \'error\', \'info\', \'success\', \'warning\']), PropTypes.string]),\\n /**\\n * If `true`, the shrink animation is disabled.\\n * This only works if variant is `indeterminate`.\\n * @default false\\n */\\n disableShrink: chainPropTypes(PropTypes.bool, props => {\\n if (props.disableShrink && props.variant && props.variant !== \'indeterminate\') {\\n return new Error(\'MUI: You have provided the `disableShrink` prop \' + \'with a variant other than `indeterminate`. This will have no effect.\');\\n }\\n return null;\\n }),\\n /**\\n * The size of the component.\\n * If using a number, the pixel unit is assumed.\\n * If using a string, you need to provide the CSS unit, for example \'3rem\'.\\n * @default 40\\n */\\n size: PropTypes.oneOfType([PropTypes.number, PropTypes.string]),\\n /**\\n * @ignore\\n */\\n style: PropTypes.object,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * The thickness of the circle.\\n * @default 3.6\\n */\\n thickness: PropTypes.number,\\n /**\\n * The value of the progress indicator for the determinate variant.\\n * Value between 0 and 100.\\n * @default 0\\n */\\n value: PropTypes.number,\\n /**\\n * The variant to use.\\n * Use indeterminate when there is no progress value.\\n * @default \'indeterminate\'\\n */\\n variant: PropTypes.oneOf([\'determinate\', \'indeterminate\'])\\n} : void 0;\\nexport default CircularProgress;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getCircularProgressUtilityClass(slot) {\\n return generateUtilityClass(\'MuiCircularProgress\', slot);\\n}\\nconst circularProgressClasses = generateUtilityClasses(\'MuiCircularProgress\', [\'root\', \'determinate\', \'indeterminate\', \'colorPrimary\', \'colorSecondary\', \'svg\', \'circle\', \'circleDeterminate\', \'circleIndeterminate\', \'circleDisableShrink\']);\\nexport default circularProgressClasses;"],"names":["circularRotateKeyframe","circularDashKeyframe","rotateAnimation","dashAnimation","CircularProgressRoot","name","slot","overridesResolver","props","styles","ownerState","root","variant","color","theme","display","variants","style","transition","transitions","create","animation","Object","entries","palette","filter","map","vars","main","CircularProgressSVG","svg","CircularProgressCircle","circle","disableShrink","circleDisableShrink","stroke","strokeDasharray","strokeDashoffset","inProps","ref","className","size","thickness","value","other","classes","slots","useUtilityClasses","circleStyle","rootStyle","rootProps","circumference","Math","PI","toFixed","round","transform","width","height","role","children","viewBox","cx","cy","r","fill","strokeWidth","getCircularProgressUtilityClass"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/722.4329bc98.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/722.4329bc98.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/722.4329bc98.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/722.4329bc98.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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Toolbar.propTypes /* remove-proptypes */ = {\\n // \xe2\x94\x8c\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80 Warning \xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x80\xe2\x94\x90\\n // \xe2\x94\x82 These PropTypes are generated from the TypeScript type definitions. \xe2\x94\x82\\n // \xe2\x94\x82 To update them, edit the d.ts file and run `pnpm proptypes`. \xe2\x94\x82\\n 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flex item properties to be used to lay out the children.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * If `true`, disables gutter padding.\\n * @default false\\n */\\n disableGutters: PropTypes.bool,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * The variant to use.\\n * @default \'regular\'\\n */\\n variant: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'dense\', \'regular\']), PropTypes.string])\\n} : void 0;\\nexport default Toolbar;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getToolbarUtilityClass(slot) {\\n return generateUtilityClass(\'MuiToolbar\', slot);\\n}\\nconst toolbarClasses = generateUtilityClasses(\'MuiToolbar\', [\'root\', \'gutters\', \'regular\', \'dense\']);\\nexport default toolbarClasses;"],"names":["circularRotateKeyframe","circularDashKeyframe","rotateAnimation","dashAnimation","CircularProgressRoot","name","slot","overridesResolver","props","styles","ownerState","root","variant","color","theme","display","variants","style","transition","transitions","create","animation","Object","entries","palette","filter","map","vars","main","CircularProgressSVG","svg","CircularProgressCircle","circle","disableShrink","circleDisableShrink","stroke","strokeDasharray","strokeDashoffset","inProps","ref","className","size","thickness","value","other","classes","slots","useUtilityClasses","circleStyle","rootStyle","rootProps","circumference","Math","PI","toFixed","round","transform","width","height","role","children","viewBox","cx","cy","r","fill","strokeWidth","getCircularProgressUtilityClass","mapEventPropToEvent","eventProp","substring","toLowerCase","ClickAwayListener","disableReactTree","mouseEvent","onClickAway","touchEvent","movedRef","nodeRef","activatedRef","syntheticEventRef","setTimeout","current","handleRef","handleClickAway","event","insideReactTree","doc","documentElement","clientWidth","clientX","clientHeight","clientY","clickedRootScrollbar","insideDOM","composedPath","includes","contains","target","createHandleSynthetic","handlerName","childrenPropsHandler","childrenProps","mappedTouchEvent","handleTouchMove","addEventListener","removeEventListener","mappedMouseEvent","ToolbarRoot","disableGutters","gutters","position","alignItems","paddingLeft","spacing","paddingRight","breakpoints","up","minHeight","mixins","toolbar","component","as","getToolbarUtilityClass"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7309.f9d18abb.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7309.f9d18abb.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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+//# sourceMappingURL=7309.f9d18abb.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7309.f9d18abb.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7309.f9d18abb.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7348.40afbdc0.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7348.40afbdc0.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7348.40afbdc0.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7348.40afbdc0.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7374.932d083d.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7374.932d083d.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7374.932d083d.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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ListItemSecondaryAction.propTypes /* remove-proptypes */ = {\n // ┌────────────────────────────── Warning ──────────────────────────────┐\n // │ These PropTypes are generated from the TypeScript type definitions. │\n // │ To update them, edit the d.ts file and run `pnpm proptypes`. │\n // └─────────────────────────────────────────────────────────────────────┘\n /**\n * The content of the component, normally an `IconButton` or selection control.\n */\n children: PropTypes.node,\n /**\n * Override or extend the styles applied to the component.\n */\n classes: PropTypes.object,\n /**\n * @ignore\n */\n className: PropTypes.string,\n /**\n * The system prop that allows defining system overrides as well as additional CSS styles.\n */\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object])\n} : void 0;\nListItemSecondaryAction.muiName = 'ListItemSecondaryAction';\nexport default ListItemSecondaryAction;","import generateUtilityClasses from '@mui/utils/generateUtilityClasses';\nimport generateUtilityClass from '@mui/utils/generateUtilityClass';\nexport function getListItemSecondaryActionClassesUtilityClass(slot) {\n return generateUtilityClass('MuiListItemSecondaryAction', slot);\n}\nconst listItemSecondaryActionClasses = generateUtilityClasses('MuiListItemSecondaryAction', ['root', 'disableGutters']);\nexport default listItemSecondaryActionClasses;"],"names":["ListItemSecondaryActionRoot","name","slot","overridesResolver","props","styles","ownerState","root","disableGutters","position","right","top","transform","variants","style","ListItemSecondaryAction","inProps","ref","className","other","context","classes","slots","g","useUtilityClasses","muiName","getListItemSecondaryActionClassesUtilityClass"],"sourceRoot":""}
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7389.fa6a1eb0.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7389.fa6a1eb0.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7389.fa6a1eb0.chunk.js.map
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IAnyStateTreeNode } from 'mobx-state-tree'\nimport { Button, Paper, Typography, alpha } from '@mui/material'\nimport { getSession } from '@jbrowse/core/util'\nimport { makeStyles } from 'tss-react/mui'\nimport { observer } from 'mobx-react'\nimport { useDropzone } from 'react-dropzone'\n\n// icons\nimport CloudUploadIcon from '@mui/icons-material/CloudUpload'\n\n// locals\nimport ImportError from './ImportError'\n\nconst MAX_FILE_SIZE = 512 * 1024 ** 2 // 512 MiB\n\nfunction styledBy(property: string, mapping: Record<string, string>) {\n return (props: Record<string, string>) => mapping[props[property]!]\n}\n\n// @ts-expect-error\nconst useStyles = makeStyles()(theme => ({\n root: {\n margin: theme.spacing(1),\n },\n paper: {\n display: 'flex',\n flexDirection: 'column',\n },\n dropZone: {\n textAlign: 'center',\n margin: theme.spacing(2),\n padding: theme.spacing(2),\n borderWidth: 2,\n borderRadius: 2,\n borderColor: styledBy('isDragActive', {\n true: theme.palette.secondary.light,\n false: theme.palette.divider,\n }),\n borderStyle: 'dashed',\n backgroundColor: styledBy('isDragActive', {\n true: alpha(\n theme.palette.text.primary,\n theme.palette.action.hoverOpacity,\n ),\n false: theme.palette.background.default,\n }),\n outline: 'none',\n transition: 'border .24s ease-in-out',\n '&:focus': {\n borderColor: theme.palette.secondary.light,\n },\n },\n uploadIcon: {\n color: theme.palette.text.secondary,\n },\n}))\n\nconst ImportSessionWidget = observer(function ({\n model,\n}: {\n model: IAnyStateTreeNode\n}) {\n const [error, setError] = useState<unknown>()\n const { getRootProps, getInputProps, isDragActive } = useDropzone({\n // @ts-expect-error\n accept: 'application/json',\n maxSize: MAX_FILE_SIZE,\n multiple: false,\n onDrop: async (acceptedFiles, rejectedFiles) => {\n try {\n if (rejectedFiles.length > 0) {\n throw new Error(rejectedFiles[0]!.errors.map(e => `${e}`).join(', '))\n }\n const sessionText = await acceptedFiles[0]!.text()\n 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7407.4421929d.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7407.4421929d.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7407.4421929d.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7407.4421929d.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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*/\\n className: PropTypes.string,\\n /**\\n * Adds a transition delay, to allow a series of SpeedDialActions to be animated.\\n * @default 0\\n */\\n delay: PropTypes.number,\\n /**\\n * Props applied to the [`Fab`](https://mui.com/material-ui/api/fab/) component.\\n * @default {}\\n */\\n FabProps: PropTypes.object,\\n /**\\n * The icon to display in the SpeedDial Fab.\\n */\\n icon: PropTypes.node,\\n /**\\n * This prop is used to help implement the accessibility logic.\\n * If you don\'t provide this prop. It falls back to a randomly generated id.\\n */\\n id: PropTypes.string,\\n /**\\n * If `true`, the component is shown.\\n */\\n open: PropTypes.bool,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * `classes` prop applied to the [`Tooltip`](https://mui.com/material-ui/api/tooltip/) element.\\n */\\n TooltipClasses: PropTypes.object,\\n /**\\n * Make the tooltip always visible when the SpeedDial is open.\\n * @default false\\n */\\n tooltipOpen: PropTypes.bool,\\n /**\\n * Placement of the tooltip.\\n * @default \'left\'\\n */\\n tooltipPlacement: PropTypes.oneOf([\'bottom-end\', \'bottom-start\', \'bottom\', \'left-end\', \'left-start\', \'left\', \'right-end\', \'right-start\', \'right\', \'top-end\', \'top-start\', \'top\']),\\n /**\\n * Label to display in the tooltip.\\n */\\n tooltipTitle: PropTypes.node\\n} : void 0;\\nexport default SpeedDialAction;"],"names":["FabRoot","name","slot","shouldForwardProp","prop","overridesResolver","props","styles","ownerState","root","variant","size","color","colorInherit","theme","typography","button","minHeight","transition","transitions","create","duration","short","borderRadius","padding","minWidth","width","height","zIndex","vars","fab","boxShadow","shadows","palette","text","primary","getContrastText","grey","backgroundColor","A100","textDecoration","focusVisible","variants","style","Object","entries","filter","map","contrastText","main","dark","disabled","action","disabledBackground","inProps","ref","children","className","component","disableFocusRipple","focusVisibleClassName","other","classes","slots","composedClasses","useUtilityClasses","focusRipple","getFabUtilityClass","getSpeedDialActionUtilityClass","generateUtilityClass","generateUtilityClasses","SpeedDialActionFab","styled","Fab","skipVariantsResolver","open","fabClosed","memoTheme","margin","secondary","background","paper","SpeedDialAction","fabHoverBg","shorter","opacity","transform","SpeedDialActionStaticTooltip","staticTooltip","staticTooltipClosed","capitalize","tooltipPlacement","position","display","alignItems","staticTooltipLabel","transformOrigin","right","marginRight","left","marginLeft","SpeedDialActionStaticTooltipLabel","body1","shape","wordBreak","delay","FabProps","icon","id","TooltipClasses","tooltipOpen","tooltipOpenProp","tooltipTitle","composeClasses","setTooltipOpen","transitionStyle","transitionDelay","clsx","tabIndex","role","Tooltip","title","placement","onClose","onOpen"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7409.8e71acc1.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7409.8e71acc1.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7409.8e71acc1.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7409.8e71acc1.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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end: number },\\n line: string,\\n fileOffset: number,\\n ) {\\n const fields = line.split(\'\\\\t\')\\n\\n // note: index column numbers are 1-based\\n return {\\n start: +fields[columnNumbers.start - 1]!,\\n end: +fields[columnNumbers.end - 1]!,\\n lineHash: fileOffset,\\n fields,\\n }\\n }\\n\\n public freeResources(/* { region } */) {}\\n}\\n","import { GFF3FeatureLineWithRefs } from \'gff-nostream\'\\n\\ninterface GFF3Feature {\\n start: number\\n end: number\\n strand?: number\\n type: string | null\\n source: string | null\\n refName: string\\n derived_features: unknown[] | null\\n phase?: number\\n score?: number\\n subfeatures: GFF3Feature[] | undefined\\n [key: string]: unknown\\n}\\n\\nexport function featureData(data: GFF3FeatureLineWithRefs): GFF3Feature {\\n const {\\n end,\\n start,\\n child_features,\\n derived_features,\\n attributes,\\n type,\\n source,\\n phase,\\n seq_id,\\n score,\\n strand,\\n } = data\\n\\n let strand2: number | undefined\\n if (strand === \'+\') {\\n strand2 = 1\\n } else if (strand === \'-\') {\\n strand2 = -1\\n } else if (strand === \'.\') {\\n strand2 = 0\\n }\\n\\n const defaultFields = new Set([\\n \'start\',\\n \'end\',\\n \'seq_id\',\\n \'score\',\\n \'type\',\\n \'source\',\\n \'phase\',\\n \'strand\',\\n ])\\n const dataAttributes = attributes || {}\\n const resultAttributes = {} as Record<string, unknown>\\n for (const a of Object.keys(dataAttributes)) {\\n let b = a.toLowerCase()\\n if (defaultFields.has(b)) {\\n // add \\"suffix\\" to tag name if it already exists\\n // reproduces behavior of NCList\\n b += \'2\'\\n }\\n if (dataAttributes[a] && a !== \'_lineHash\') {\\n let attr: string | string[] | undefined = dataAttributes[a]\\n if (Array.isArray(attr) && attr.length === 1) {\\n ;[attr] = attr\\n }\\n resultAttributes[b] = attr\\n }\\n }\\n\\n return {\\n ...resultAttributes,\\n start: start! - 1,\\n end: end!,\\n strand: strand2,\\n type,\\n source,\\n refName: seq_id!,\\n derived_features,\\n phase: phase === null ? undefined : Number(phase),\\n score: score === null ? undefined : score,\\n subfeatures: child_features.flatMap(childLocs =>\\n childLocs.map(childLoc => featureData(childLoc)),\\n ),\\n }\\n}\\n"],"names":["Gff3TabixAdapter","BaseFeatureDataAdapter","constructor","config","getSubAdapter","pluginManager","super","gffGzLocation","readConfObject","indexType","location","dontRedispatch","this","gff","TabixIndexedFile","filehandle","openLocation","csiFilehandle","undefined","tbiFilehandle","chunkCacheSize","renameRefSeqs","n","getRefNames","opts","getReferenceSequenceNames","getHeader","getFeatures","query","ObservableCreate","async","metadata","getMetadata","getFeaturesHelper","observer","signal","allowRedispatch","originalQuery","lines","getLines","refName","start","end","line","fileOffset","push","parseLine","columnNumbers","length","minStart","Number","POSITIVE_INFINITY","maxEnd","NEGATIVE_INFINITY","featureType","fields","includes","gff3","map","lineRecord","lineHash","join","featureLocs","parseStringSync","featureLoc","f","SimpleFeature","data","featureData","id","attributes","_lineHash","doesIntersect2","get","next","complete","e","error","split","freeResources","child_features","derived_features","type","source","phase","seq_id","score","strand","strand2","defaultFields","Set","dataAttributes","resultAttributes","a","Object","keys","b","toLowerCase","has","attr","Array","isArray","subfeatures","flatMap","childLocs","childLoc"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/741.a9772d36.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/741.a9772d36.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[741],{60741:(e,n,t)=>{t.r(n),t.d(n,{default:()=>A});var o=t(7552),l=t(89003),c=t(61723),r=t(29499),a=t(36715),i=t(58507),s=t(5401),m=t(49823),u=t(75785),d=t(68446),E=t(68584),b=t(30157);const C=(0,u.n9)()((e=>({connectionContainer:{margin:e.spacing(4),width:500}})));function h(){return o.createElement(l.A,{title:"Unable to delete connection in config file as non-admin user"},o.createElement(c.A,null,o.createElement(b.A,{color:"disabled"})))}const A=(0,d.observer)((function({session:e,handleClose:n,breakConnection:t}){const{classes:l}=C(),{adminMode:u,connections:d,sessionConnections:A}=e;return o.createElement(m.Dialog,{open:!0,onClose:n,maxWidth:"lg",title:"Delete connections"},o.createElement(r.A,null,o.createElement(a.A,null,"Click the X icon to delete the connection from your config completely"),o.createElement("div",{className:l.connectionContainer},d.map((e=>{const n=(0,E.readConfObject)(e,"name");return o.createElement(a.A,{key:`conn-${n}`},u||A?.includes(e)?o.createElement(c.A,{onClick:()=>{t(e,!0)}},o.createElement(b.A,{color:"error"})):o.createElement(h,null),n)})),d.length?null:o.createElement(a.A,null,"No connections found"))),o.createElement(i.A,null,o.createElement(s.A,{onClick:()=>{n()},variant:"contained",color:"primary"},"Close")))}))}}]);
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/741.a9772d36.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/741.a9772d36.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7418.2ac24978.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7418.2ac24978.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7418.2ac24978.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7418.2ac24978.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7428.1e6f676f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7428.1e6f676f.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7428.1e6f676f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7489.b8a76d29.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7489.b8a76d29.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7489.b8a76d29.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7489.b8a76d29.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7564.3a461e67.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7564.3a461e67.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7564.3a461e67.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7564.3a461e67.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7579.1b98701c.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7579.1b98701c.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7579.1b98701c.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7579.1b98701c.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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-1 : 1\\n return { refName, pos, strand }\\n}\\n\\nconst numericColumns: Record<string, boolean> = {\\n SpanningFragCount: true,\\n FFPM: true,\\n LeftBreakEntropy: true,\\n RightBreakEntropy: true,\\n JunctionReadCount: true,\\n}\\n\\nexport async function parseSTARFusionBuffer(\\n buffer: Buffer,\\n options: ParseOptions,\\n) {\\n const data = await parseTsvBuffer(buffer, {\\n hasColumnNameLine: true,\\n columnNameLineNumber: 1,\\n selectedAssemblyName: options.selectedAssemblyName,\\n isValidRefName: () => false,\\n })\\n\\n // remove the # in #FusionName\\n data.columns[0]!.name = data.columns[0]!.name.replace(\'#\', \'\')\\n // set some columns to be numeric\\n data.columns.forEach(col => {\\n if (numericColumns[col.name]) {\\n col.dataType = { type: \'Number\' }\\n }\\n })\\n\\n // decorate each row with a feature object in its extendedData\\n data.rowSet.rows.forEach((row, rowNumber) => {\\n const featureData: Record<string, any> = {}\\n row.cells.forEach(({ text }, columnNumber) => {\\n const column = data.columns[columnNumber]!\\n if (column.name === \'LeftBreakpoint\' && text) {\\n const { refName, pos, strand } = parseSTARFusionBreakpointString(text)\\n featureData.refName = refName\\n featureData.start = pos\\n featureData.end = pos\\n featureData.strand = strand\\n } else if (column.name === \'RightBreakpoint\' && text) {\\n const { refName, pos, strand } = parseSTARFusionBreakpointString(text)\\n featureData.mate = {\\n refName,\\n start: pos,\\n end: pos,\\n strand,\\n }\\n } else if (text && numericColumns[column.name]) {\\n // some other column, numeric\\n featureData[column.name] = Number.parseFloat(text)\\n } else {\\n // some other column, text\\n featureData[column.name] = text\\n }\\n })\\n featureData.uniqueId = `sf-${rowNumber + 1}`\\n row.extendedData = {\\n feature: featureData,\\n }\\n })\\n\\n return data\\n}\\n"],"names":["bufferToString","buffer","TextDecoder","fatal","decode","async","parseWith","options","then","module","default","noheader","output","fromString","guessColumnType","rowSet","columnNumber","isValidRefName","text","rows","cells","parsedLoc","guessedType","parseLocString","error","refName","start","test","dataToSpreadsheetSnapshot","hasColumnNameLine","columnNameLineNumber","selectedAssemblyName","maxCols","isLoaded","map","row","rowNumber","id","length","String","columnNames","undefined","colNamesRow","splice","forEach","cell","columns","columnDisplayOrder","push","extendedData","name","dataType","type","hasColumnNames","assemblyName","parseCsvBuffer","parseTsvBuffer","delimiter","parseSTARFusionBreakpointString","str","fields","split","pos","Number","parseInt","strand","numericColumns","SpanningFragCount","FFPM","LeftBreakEntropy","RightBreakEntropy","JunctionReadCount","parseSTARFusionBuffer","data","replace","col","featureData","column","end","mate","parseFloat","uniqueId","feature"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7627.31dfd44e.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7627.31dfd44e.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7627.31dfd44e.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7627.31dfd44e.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
+{"version":3,"file":"static/js/7627.31dfd44e.chunk.js","mappings":"iMAUOA,eAAeC,EACpBC,EACAC,EACAC,SAEMC,EAAAA,EAAAA,OAAK,MAAQH,EAAKI,SAAWJ,EAAKK,6BACxC,MAAM,cAAEC,EAAa,MAAEF,GAAUJ,GAC3B,SAAEO,IAAaC,EAAAA,EAAAA,mBAAkBR,GACvC,OACES,EAAAA,cAAAA,EAAAA,SAAA,KACEA,EAAAA,cAAA,KAAGC,GAAG,gBAAgBR,EAAeD,IACpCK,GAAiBF,EAChBK,EAAAA,cAAA,KAAGE,UAAW,aAAaC,KAAKC,KAAKN,EAAU,OAC7CE,EAAAA,cAACK,EAAAA,EAAS,CAACC,MAAOf,EAAMgB,YAAY,UAEpC,KAGV,C","sources":["../../../plugins/wiggle/src/LinearWiggleDisplay/models/renderSvg.tsx"],"sourcesContent":["import React from 'react'\nimport { getContainingView } from '@jbrowse/core/util'\nimport { when } from 'mobx'\nimport YScaleBar from '../../shared/YScaleBar'\nimport {\n ExportSvgDisplayOptions,\n LinearGenomeViewModel,\n} from '@jbrowse/plugin-linear-genome-view'\nimport { WiggleDisplayModel } from './model'\n\nexport async function renderSvg(\n self: WiggleDisplayModel,\n opts: ExportSvgDisplayOptions,\n superRenderSvg: (opts: ExportSvgDisplayOptions) => Promise<React.ReactNode>,\n) {\n await when(() => !!self.stats && !!self.regionCannotBeRenderedText)\n const { needsScalebar, stats } = self\n const { offsetPx } = getContainingView(self) as LinearGenomeViewModel\n return (\n <>\n <g id=\"snpcov\">{await superRenderSvg(opts)}</g>\n {needsScalebar && stats ? (\n <g transform={`translate(${Math.max(-offsetPx, 0)})`}>\n <YScaleBar model={self} orientation=\"left\" />\n </g>\n ) : null}\n </>\n )\n}\n"],"names":["async","renderSvg","self","opts","superRenderSvg","when","stats","regionCannotBeRenderedText","needsScalebar","offsetPx","getContainingView","React","id","transform","Math","max","YScaleBar","model","orientation"],"sourceRoot":""}
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/765.20669bca.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/765.20669bca.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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+//# sourceMappingURL=765.20669bca.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/765.20669bca.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/765.20669bca.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
+{"version":3,"file":"static/js/765.20669bca.chunk.js","mappings":"0NAUA,MAyDA,EAzD4BA,EAC1BC,kBACAC,UACAC,gBAMA,MAAOC,EAAOC,IAAYC,EAAAA,EAAAA,YAC1B,OACEC,EAAAA,cAACC,EAAAA,OAAM,CACLC,MAAI,EACJP,QAASA,KACPA,GAAQ,EAAM,EAEhBQ,MAAO,mBAAmBT,OAE1BM,EAAAA,cAACI,EAAAA,EAAa,KACXP,EAAQG,EAAAA,cAACK,EAAAA,aAAY,CAACR,MAAOA,IAAY,KAC1CG,EAAAA,cAACM,EAAAA,EAAiB,KAAC,iCAErBN,EAAAA,cAACO,EAAAA,EAAa,KACZP,EAAAA,cAACQ,EAAAA,EAAM,CACLC,QAASA,KACPd,GAAQ,EAAM,EAEhBe,MAAM,WACP,UAGDV,EAAAA,cAACQ,EAAAA,EAAM,CACLC,QAASA,KAEN,WACC,IACMf,GACFE,EAAUe,mBAAmB,CAAEC,KAAMlB,IAEvCC,GAAQ,EACV,CAAE,MAAOkB,GACPC,QAAQjB,MAAMgB,GACdf,EAASe,EACX,CACD,EAVA,EAUG,EAENH,MAAM,UACNK,QAAQ,YACRC,WAAS,GACV,WAII,C","sources":["components/DeleteSessionDialog.tsx"],"sourcesContent":["import React, { useState } from 'react'\nimport {\n Button,\n DialogActions,\n DialogContent,\n DialogContentText,\n} from '@mui/material'\nimport { Dialog, ErrorMessage } from '@jbrowse/core/ui'\nimport type { WebRootModel } from '../rootModel/rootModel'\n\nconst DeleteSessionDialog = ({\n sessionToDelete,\n onClose,\n rootModel,\n}: {\n sessionToDelete?: string\n onClose: (_arg0: boolean) => void\n rootModel: WebRootModel\n}) => {\n const [error, setError] = useState<unknown>()\n return (\n <Dialog\n open\n onClose={() => {\n onClose(false)\n }}\n title={`Delete session \"${sessionToDelete}\"?`}\n >\n <DialogContent>\n {error ? <ErrorMessage error={error} /> : null}\n <DialogContentText>This action cannot be undone</DialogContentText>\n </DialogContent>\n <DialogActions>\n <Button\n onClick={() => {\n onClose(false)\n }}\n color=\"primary\"\n >\n Cancel\n </Button>\n <Button\n onClick={() => {\n // eslint-disable-next-line @typescript-eslint/no-floating-promises\n ;(async () => {\n try {\n if (sessionToDelete) {\n rootModel.removeSavedSession({ name: sessionToDelete })\n }\n onClose(true)\n } catch (e) {\n console.error(e)\n setError(e)\n }\n })()\n }}\n color=\"primary\"\n variant=\"contained\"\n autoFocus\n >\n Delete\n </Button>\n </DialogActions>\n </Dialog>\n )\n}\n\nexport default DeleteSessionDialog\n"],"names":["DeleteSessionDialog","sessionToDelete","onClose","rootModel","error","setError","useState","React","Dialog","open","title","DialogContent","ErrorMessage","DialogContentText","DialogActions","Button","onClick","color","removeSavedSession","name","e","console","variant","autoFocus"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7663.e79b053a.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7663.e79b053a.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7663.e79b053a.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7663.e79b053a.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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client\\";\\n\\nimport createSvgIcon from \'./utils/createSvgIcon\';\\nimport { jsx as _jsx } from \\"react/jsx-runtime\\";\\nexport default createSvgIcon( /*#__PURE__*/_jsx(\\"path\\", {\\n d: \\"M21 7h-2v2h-2V7h-2V5h2V3h2v2h2zm-2 14-7-3-7 3V5c0-1.1.9-2 2-2h7c-.63.84-1 1.87-1 3 0 2.76 2.24 5 5 5 .34 0 .68-.03 1-.1z\\"\\n}), \'BookmarkAdd\');","import React, { useState, useEffect, lazy } from \'react\'\\nimport { getSnapshot } from \'mobx-state-tree\'\\nimport { observer } from \'mobx-react\'\\nimport { Dialog, ErrorMessage } from \'@jbrowse/core/ui\'\\nimport {\\n Button,\\n DialogActions,\\n DialogContent,\\n DialogContentText,\\n IconButton,\\n TextField,\\n Typography,\\n} from \'@mui/material\'\\nimport copy from \'copy-to-clipboard\'\\nimport { StringParam, useQueryParam } from \'use-query-params\'\\nimport { AbstractSessionModel } from \'@jbrowse/core/util\'\\n\\n// icons\\nimport SettingsIcon from \'@mui/icons-material/Settings\'\\nimport { ContentCopy as ContentCopyIcon } from \'@jbrowse/core/ui/Icons\'\\nimport BookmarkAddIcon from \'@mui/icons-material/BookmarkAdd\'\\n\\n// locals\\nimport { toUrlSafeB64 } from \'../util\'\\nimport { shareSessionToDynamo } from \'../sessionSharing\'\\n\\nconst SettingsDialog = lazy(() => import(\'./ShareSettingsDialog\'))\\n\\nconst SHARE_URL'..b' setPasswordParam(result.password)\\n } else {\\n const sess = await toUrlSafeB64(JSON.stringify(getSnapshot(session)))\\n const longUrl = new URL(window.location.href)\\n const longParams = new URLSearchParams(longUrl.search)\\n longParams.set(\'session\', `encoded-${sess}`)\\n setSessionParam(`encoded-${sess}`)\\n longUrl.search = longParams.toString()\\n setLongUrl(longUrl.toString())\\n }\\n } catch (e) {\\n setError(e)\\n } finally {\\n setLoading(false)\\n }\\n })()\\n }, [currentSetting, error, session, url, snap])\\n\\n const disabled = (currentSetting === \'short\' && loading) || !!error\\n return (\\n <>\\n <Dialog\\n maxWidth=\\"xl\\"\\n open\\n onClose={handleClose}\\n title=\\"JBrowse Shareable Link\\"\\n >\\n <DialogContent>\\n <DialogContentText>\\n Copy the URL below to share your current JBrowse session.\\n <IconButton\\n onClick={() => {\\n setSettingsDialogOpen(true)\\n }}\\n >\\n <SettingsIcon />\\n </IconButton>\\n </DialogContentText>\\n\\n {currentSetting === \'short\' ? (\\n error ? (\\n <ErrorMessage\\n error={error}\\n onReset={() => {\\n setError(undefined)\\n }}\\n />\\n ) : loading ? (\\n <Typography>Generating short URL...</Typography>\\n ) : (\\n <LinkField url={shortUrl} />\\n )\\n ) : (\\n <LinkField url={longUrl} />\\n )}\\n </DialogContent>\\n <DialogActions>\\n <Button\\n startIcon={<BookmarkAddIcon />}\\n disabled={disabled}\\n onClick={event => {\\n event.preventDefault()\\n setPassword(passwordParam, \'replaceIn\')\\n setSession(sessionParam, \'replaceIn\')\\n alert(\'Now press Ctrl+D (PC) or Cmd+D (Mac)\')\\n }}\\n >\\n Create browser Bookmark\\n </Button>\\n\\n <Button\\n onClick={() => {\\n copy(shortUrl || longUrl)\\n session.notify(\'Copied to clipboard\', \'success\')\\n }}\\n startIcon={<ContentCopyIcon />}\\n disabled={disabled}\\n >\\n Copy to Clipboard\\n </Button>\\n\\n <Button onClick={handleClose} autoFocus>\\n Close\\n </Button>\\n </DialogActions>\\n </Dialog>\\n\\n <SettingsDialog\\n open={settingsDialogOpen}\\n onClose={() => {\\n setSettingsDialogOpen(false)\\n }}\\n currentSetting={currentSetting}\\n />\\n </>\\n )\\n})\\n\\nexport default ShareDialog\\n"],"names":["createSvgIcon","d","SettingsDialog","lazy","LinkField","url","React","TextField","label","value","InputProps","readOnly","variant","fullWidth","onClick","event","target","select","observer","handleClose","session","sessionParam","setSessionParam","useState","passwordParam","setPasswordParam","shortUrl","setShortUrl","longUrl","setLongUrl","loading","setLoading","error","setError","settingsDialogOpen","setSettingsDialogOpen","setPassword","useQueryParam","StringParam","setSession","shareURL","currentSetting","localStorage","getItem","snap","getSnapshot","useEffect","locationUrl","URL","window","location","href","result","shareSessionToDynamo","params","URLSearchParams","search","set","json","sessionId","password","toString","sess","toUrlSafeB64","JSON","stringify","longParams","e","disabled","Dialog","maxWidth","open","onClose","title","DialogContent","DialogContentText","IconButton","SettingsIcon","ErrorMessage","onReset","undefined","Typography","DialogActions","Button","startIcon","BookmarkAddIcon","preventDefault","alert","copy","notify","ContentCopyIcon","autoFocus"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7706.430ce07e.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7706.430ce07e.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7706.430ce07e.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/772.83c2d2db.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/772.83c2d2db.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/772.83c2d2db.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/772.83c2d2db.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7753.87963fd9.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7753.87963fd9.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7753.87963fd9.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7753.87963fd9.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7761.0cf7cf29.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7761.0cf7cf29.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7761.0cf7cf29.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7761.0cf7cf29.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7773.7e072552.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7773.7e072552.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7790.3790bece.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7790.3790bece.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7790.3790bece.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7790.3790bece.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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This will have no effect.\');\\n }\\n return null;\\n }),\\n /**\\n * The size of the component.\\n * If using a number, the pixel unit is assumed.\\n * If using a string, you need to provide the CSS unit, for example \'3rem\'.\\n * @default 40\\n */\\n size: PropTypes.oneOfType([PropTypes.number, PropTypes.string]),\\n /**\\n * @ignore\\n */\\n style: PropTypes.object,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * The thickness of the circle.\\n * @default 3.6\\n */\\n thickness: PropTypes.number,\\n /**\\n * The value of the progress indicator for the determinate variant.\\n * Value between 0 and 100.\\n * @default 0\\n */\\n value: PropTypes.number,\\n /**\\n * The variant to use.\\n * Use indeterminate when there is no progress value.\\n * @default \'indeterminate\'\\n */\\n variant: PropTypes.oneOf([\'determinate\', \'indeterminate\'])\\n} : void 0;\\nexport default CircularProgress;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getCircularProgressUtilityClass(slot) {\\n return generateUtilityClass(\'MuiCircularProgress\', slot);\\n}\\nconst circularProgressClasses = generateUtilityClasses(\'MuiCircularProgress\', [\'root\', \'determinate\', \'indeterminate\', \'colorPrimary\', \'colorSecondary\', \'svg\', \'circle\', \'circleDeterminate\', \'circleIndeterminate\', \'circleDisableShrink\']);\\nexport default circularProgressClasses;"],"names":["LoadingMessage","React","CircularProgress","size","style","marginRight","Typography","display","TextField2","children","rest","TextField","useSvgLocal","key","val","useLocalStorage","ExportSvgDialog","model","handleClose","session","getSession","offscreenCanvas","OffscreenCanvas","rasterizeLayers","setRasterizeLayers","useState","loading","setLoading","error","setError","filename","setFilename","trackLabels","setTrackLabels","themeName","setThemeName","Dialog","open","onClose","title","DialogContent","ErrorMessage","helperText","value","onChange","event","target","select","label","variant","width","MenuItem","allThemes","Object","entries","map","name","FormControlLabel","control","Checkbox","checked","DialogActions","Button","color","onClick","type","async","undefined","exportSvg","e","console","circularRotateKeyframe","circularDashKeyframe","rotateAnimation","dashAnimation","CircularProgressRoot","slot","overridesResolver","props","styles","ownerState","root","theme","variants","transition","transitions","create","animation","palette","filter","vars","main","CircularProgressSVG","svg","CircularProgressCircle","circle","disableShrink","circleDisableShrink","stroke","strokeDasharray","strokeDashoffset","inProps","ref","className","thickness","other","classes","slots","useUtilityClasses","circleStyle","rootStyle","rootProps","circumference","Math","PI","toFixed","round","transform","height","role","viewBox","cx","cy","r","fill","strokeWidth","getCircularProgressUtilityClass"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7809.eb2c5f08.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7809.eb2c5f08.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7809.eb2c5f08.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7809.eb2c5f08.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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{\\n BaseFeatureDataAdapter,\\n BaseOptions,\\n} from \'@jbrowse/core/data_adapters/BaseAdapter\'\\nimport { NoAssemblyRegion } from \'@jbrowse/core/util/types\'\\nimport { openLocation } from \'@jbrowse/core/util/io\'\\nimport { ObservableCreate } from \'@jbrowse/core/util/rxjs\'\\nimport IntervalTree from \'@flatten-js/interval-tree\'\\nimport SimpleFeature, { Feature } from \'@jbrowse/core/util/simpleFeature\'\\nimport { unzip } from \'@gmod/bgzf-filehandle\'\\nimport { parseStringSync } from \'gff-nostream\'\\nimport { isGzip, updateStatus } from \'@jbrowse/core/util\'\\nimport type { Buffer } from \'buffer\'\\n\\nimport { featureData } from \'../featureData\'\\n\\ntype StatusCallback = (arg: string) => void\\n\\nexport default class Gff3Adapter extends BaseFeatureDataAdapter {\\n calculatedIntervalTreeMap: Record<string, IntervalTree> = {}\\n\\n gffFeatures?: Promise<{\\n header: string\\n intervalTree'..b'es\\n }\\n\\n public async getRefNames(opts: BaseOptions = {}) {\\n const { 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number\\n subfeatures: GFF3Feature[] | undefined\\n [key: string]: unknown\\n}\\n\\nexport function featureData(data: GFF3FeatureLineWithRefs): GFF3Feature {\\n const {\\n end,\\n start,\\n child_features,\\n derived_features,\\n attributes,\\n type,\\n source,\\n phase,\\n seq_id,\\n score,\\n strand,\\n } = data\\n\\n let strand2: number | undefined\\n if (strand === \'+\') {\\n strand2 = 1\\n } else if (strand === \'-\') {\\n strand2 = -1\\n } else if (strand === \'.\') {\\n strand2 = 0\\n }\\n\\n const defaultFields = new Set([\\n \'start\',\\n \'end\',\\n \'seq_id\',\\n \'score\',\\n \'type\',\\n \'source\',\\n \'phase\',\\n \'strand\',\\n ])\\n const dataAttributes = attributes || {}\\n const resultAttributes = {} as Record<string, unknown>\\n for (const a of Object.keys(dataAttributes)) {\\n let b = a.toLowerCase()\\n if (defaultFields.has(b)) {\\n // add \\"suffix\\" to tag name if it already exists\\n // reproduces behavior of NCList\\n b += \'2\'\\n }\\n if (dataAttributes[a] 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}\\n}\\n"],"names":["Gff3Adapter","BaseFeatureDataAdapter","calculatedIntervalTreeMap","loadDataP","opts","statusCallback","buf","openLocation","this","getConf","pluginManager","readFile","buffer","isGzip","updateStatus","unzip","headerLines","featureMap","blockStart","decoder","TextDecoder","undefined","i","length","n","indexOf","b","subarray","line","decode","toString","trim","startsWith","push","ret","refName","slice","Math","floor","toLocaleString","intervalTreeMap","Object","fromEntries","entries","map","lines","sc","intervalTree","IntervalTree","parseStringSync","flat","f","SimpleFeature","data","featureData","id","forEach","obj","insert","get","header","join","loadData","gffFeatures","catch","e","getRefNames","keys","getHeader","getFeatures","query","ObservableCreate","async","start","end","search","observer","next","complete","error","signal","freeResources","child_features","derived_features","attributes","type","source","phase","seq_id","score","strand","strand2","defaultFields","Set","dataAttributes","resultAttributes","a","toLowerCase","has","attr","Array","isArray","Number","subfeatures","flatMap","childLocs","childLoc"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/7812.6bb31bfb.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7812.6bb31bfb.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7831.cfcb0221.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7831.cfcb0221.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7831.cfcb0221.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7831.cfcb0221.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7842.cbff451c.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7842.cbff451c.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7842.cbff451c.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7842.cbff451c.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7864.59d0de32.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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flex item properties to be used to lay out the children.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * If `true`, disables gutter padding.\\n * @default false\\n */\\n disableGutters: PropTypes.bool,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * The variant to use.\\n * @default \'regular\'\\n */\\n variant: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'dense\', \'regular\']), PropTypes.string])\\n} : void 0;\\nexport 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7911.764ec401.chunk.js.LICENSE.txt
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7911.764ec401.chunk.js.LICENSE.txt Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,34 @@
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+
+/*!
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+ *
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+ */
+
+/*!
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+ *
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+ */
+
+/*!
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+ *
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+ */
+
+/*!
+ * set-value <https://github.com/jonschlinkert/set-value>
+ *
+ * Copyright (c) Jon Schlinkert (https://github.com/jonschlinkert).
+ * Released under the MIT License.
+ */

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7974.3f19c570.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/7991.5d96c772.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/7991.5d96c772.chunk.js Sat Oct 05 23:58:05 2024 +0000

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Is passed to child components.\\n */\\n active: PropTypes.bool,\\n /**\\n * Should be `Step` sub-components such as `StepLabel`, `StepContent`.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * Mark the step as completed. Is passed to child components.\\n */\\n completed: PropTypes.bool,\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * If `true`, the step is disabled, will also disable the button if\\n * `StepButton` is a child of `Step`. 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8007.3025c802.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8007.3025c802.chunk.js.LICENSE.txt
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8007.3025c802.chunk.js.LICENSE.txt Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,14 @@
+/*! *****************************************************************************
+Copyright (c) Microsoft Corporation.
+
+Permission to use, copy, modify, and/or distribute this software for any
+purpose with or without fee is hereby granted.
+
+THE SOFTWARE IS PROVIDED "AS IS" AND THE AUTHOR DISCLAIMS ALL WARRANTIES WITH
+REGARD TO THIS SOFTWARE INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY
+AND FITNESS. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY SPECIAL, DIRECT,
+INDIRECT, OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM
+LOSS OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE OR
+OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE OR
+PERFORMANCE OF THIS SOFTWARE.
+***************************************************************************** */

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8007.3025c802.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8009.a65f1b78.chunk.js.map
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8076.fc478e91.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8076.fc478e91.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8105.4fd35586.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8105.4fd35586.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8105.4fd35586.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8105.4fd35586.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8109.344e1845.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8109.344e1845.chunk.js Sat Oct 05 23:58:05 2024 +0000

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8120.85042513.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8120.85042513.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8120.85042513.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8150.09c54606.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8150.09c54606.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[8150],{98150:(a,s,e)=>{e.r(s),e.d(s,{ModalManager:()=>l.P,default:()=>b.A,getModalUtilityClass:()=>o.M,modalClasses:()=>o.A});var l=e(28276),b=e(31694),o=e(48331)}}]);
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8165.d07843b4.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8165.d07843b4.chunk.js Sat Oct 05 23:58:05 2024 +0000

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8187.383aefbf.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8187.383aefbf.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8187.383aefbf.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8301.877076ce.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8341.fa84fa67.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8341.fa84fa67.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8341.fa84fa67.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8341.fa84fa67.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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flex item properties to be used to lay out the children.\\n */\\n children: PropTypes.node,\\n /**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The component used for the root node.\\n * Either a string to use a HTML element or a component.\\n */\\n component: PropTypes.elementType,\\n /**\\n * If `true`, disables gutter padding.\\n * @default false\\n */\\n disableGutters: PropTypes.bool,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object]),\\n /**\\n * The variant to use.\\n * @default \'regular\'\\n */\\n variant: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'dense\', \'regular\']), PropTypes.string])\\n} : void 0;\\nexport default Toolbar;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getToolbarUtilityClass(slot) {\\n return generateUtilityClass(\'MuiToolbar\', slot);\\n}\\nconst toolbarClasses = generateUtilityClasses(\'MuiToolbar\', [\'root\', \'gutters\', \'regular\', \'dense\']);\\nexport default toolbarClasses;"],"names":["circularRotateKeyframe","circularDashKeyframe","rotateAnimation","dashAnimation","CircularProgressRoot","name","slot","overridesResolver","props","styles","ownerState","root","variant","color","theme","display","variants","style","transition","transitions","create","animation","Object","entries","palette","filter","map","vars","main","CircularProgressSVG","svg","CircularProgressCircle","circle","disableShrink","circleDisableShrink","stroke","strokeDasharray","strokeDashoffset","inProps","ref","className","size","thickness","value","other","classes","slots","useUtilityClasses","circleStyle","rootStyle","rootProps","circumference","Math","PI","toFixed","round","transform","width","height","role","children","viewBox","cx","cy","r","fill","strokeWidth","getCircularProgressUtilityClass","mapEventPropToEvent","eventProp","substring","toLowerCase","ClickAwayListener","disableReactTree","mouseEvent","onClickAway","touchEvent","movedRef","nodeRef","activatedRef","syntheticEventRef","setTimeout","current","handleRef","handleClickAway","event","insideReactTree","doc","documentElement","clientWidth","clientX","clientHeight","clientY","clickedRootScrollbar","insideDOM","composedPath","includes","contains","target","createHandleSynthetic","handlerName","childrenPropsHandler","childrenProps","mappedTouchEvent","handleTouchMove","addEventListener","removeEventListener","mappedMouseEvent","ToolbarRoot","disableGutters","gutters","position","alignItems","paddingLeft","spacing","paddingRight","breakpoints","up","minHeight","mixins","toolbar","component","as","getToolbarUtilityClass"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8343.dd515382.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8343.dd515382.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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+//# sourceMappingURL=8343.dd515382.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8343.dd515382.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8343.dd515382.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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await updateStatus('Unzipping', statusCallback, () => unzip(buf))\n : buf\n const headerLines = []\n const featureMap = {} as Record<string, string[]>\n let blockStart = 0\n\n const decoder =\n typeof TextDecoder !== 'undefined' ? new TextDecoder('utf8') : undefined\n\n let i = 0\n while (blockStart < buffer.length) {\n const n = buffer.indexOf('\\n', blockStart)\n // could be a non-newline ended file, so slice to end of file if n===-1\n const b =\n n === -1 ? buffer.subarray(blockStart) : buffer.subarray(blockStart, n)\n const line = (decoder?.decode(b) || b.toString()).trim()\n if (line) {\n if (line.startsWith('#')) {\n headerLines.push(line)\n } else {\n const ret = line.indexOf('\\t')\n const refName = line.slice(0, ret)\n if (!featureMap[refName]) {\n featureMap[refName] = []\n }\n featureMap[refName].push(line)\n }\n }\n if (i++ % 10_000 === 0) {\n statusCallback(\n `Loading ${Math.floor(blockStart / 1_000_000).toLocaleString('en-US')}/${Math.floor(buffer.length / 1_000_000).toLocaleString('en-US')} MB`,\n )\n }\n\n blockStart = n + 1\n }\n\n const header = headerLines.join('\\n')\n const parser = new VCF({ header })\n\n const intervalTreeMap = Object.fromEntries(\n Object.entries(featureMap).map(([refName, lines]) => [\n refName,\n (sc?: (arg: string) => void) => {\n if (!this.calculatedIntervalTreeMap[refName]) {\n sc?.('Parsing VCF data')\n let idx = 0\n const intervalTree = new IntervalTree()\n for (const line of lines) {\n const f = new VcfFeature({\n variant: parser.parseLine(line),\n parser,\n id: `${this.id}-${refName}-${idx++}`,\n })\n intervalTree.insert([f.get('start'), f.get('end')], f)\n }\n this.calculatedIntervalTreeMap[refName] = intervalTree\n }\n return this.calculatedIntervalTreeMap[refName]\n },\n ]),\n )\n\n return {\n header,\n intervalTreeMap,\n }\n }\n\n public async setup() {\n if (!this.vcfFeatures) {\n this.vcfFeatures = this.setupP().catch((e: unknown) => {\n this.vcfFeatures = undefined\n throw e\n })\n }\n return this.vcfFeatures\n }\n\n public async getRefNames(_: BaseOptions = {}) {\n const { intervalTreeMap } = await this.setup()\n return Object.keys(intervalTreeMap)\n }\n\n public getFeatures(region: Region, opts: BaseOptions = {}) {\n return ObservableCreate<Feature>(async observer => {\n try {\n const { start, end, refName } = region\n const { intervalTreeMap } = await this.setup()\n intervalTreeMap[refName]?.(opts.statusCallback)\n .search([start, end])\n .forEach(f => {\n observer.next(f)\n })\n observer.complete()\n } catch (e) {\n observer.error(e)\n }\n }, opts.signal)\n }\n\n public freeResources(): void {}\n}\n"],"names":["VcfAdapter","BaseFeatureDataAdapter","calculatedIntervalTreeMap","getHeader","header","this","setup","getMetadata","VCF","setupP","opts","statusCallback","buf","openLocation","getConf","pluginManager","readFile","buffer","isGzip","updateStatus","unzip","headerLines","featureMap","blockStart","decoder","TextDecoder","undefined","i","length","n","indexOf","b","subarray","line","decode","toString","trim","startsWith","push","ret","refName","slice","Math","floor","toLocaleString","join","parser","intervalTreeMap","Object","fromEntries","entries","map","lines","sc","idx","intervalTree","IntervalTree","f","VcfFeature","variant","parseLine","id","insert","get","vcfFeatures","catch","e","getRefNames","_","keys","getFeatures","region","ObservableCreate","async","start","end","search","forEach","observer","next","complete","error","signal","freeResources"],"sourceRoot":""}
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8408.2e2896bf.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8408.2e2896bf.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8408.2e2896bf.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8408.2e2896bf.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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(\n <BlockMsg\n message={`${error}`}\n severity=\"error\"\n action={\n <Tooltip title=\"Reload\">\n <Button\n data-testid=\"reload_button\"\n onClick={() => {\n model.reload()\n }}\n >\n Reload\n </Button>\n </Tooltip>\n }\n />\n ) : regionTooLarge ? (\n model.regionCannotBeRendered()\n ) : (\n <DataDisplay model={model}>{children}</DataDisplay>\n )\n})\n\nconst DataDisplay = observer(function ({\n model,\n children,\n}: {\n model: LinearReadArcsDisplayModel | LinearReadCloudDisplayModel\n children?: React.ReactNode\n}) {\n const { drawn, loading } = model\n const view = getContainingView(model) as LinearGenomeViewModel\n const left = (model.lastDrawnOffsetPx || 0) - view.offsetPx\n return (\n // this data-testid is located here because changing props on the canvas\n // itself is very sensitive to triggering ref invalidation\n <div data-testid={`drawn-${drawn}`}>\n <div style={{ position: 'absolute', left }}>{children}</div>\n {left !== 0 || loading ? <LoadingBar model={model} /> : null}\n </div>\n )\n})\n\nconst LoadingBar = observer(function ({\n model,\n}: {\n model: LinearReadArcsDisplayModel | LinearReadCloudDisplayModel\n}) {\n const { classes } = useStyles()\n const { message } = model\n return (\n <div className={classes.loading}>\n <LoadingEllipses message={message} />\n </div>\n )\n})\n\nexport default BaseDisplayComponent\n"],"names":["Cloud","observer","model","view","getContainingView","width","Math","round","dynamicBlocks","totalWidthPx","height","cb","useCallback","ref","setRef","React","style","position","BaseDisplayComponent","useStyles","makeStyles","theme","loading","backgroundColor","palette","background","default","backgroundImage","action","disabledBackground","bottom","right","pointerEvents","textAlign","children","error","regionTooLarge","BlockMsg","message","severity","Tooltip","title","Button","onClick","reload","regionCannotBeRendered","DataDisplay","drawn","left","lastDrawnOffsetPx","offsetPx","LoadingBar","classes","className","LoadingEllipses"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8424.a1a3e663.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8424.a1a3e663.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8424.a1a3e663.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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factor <= sqrtN; factor++) {\\n\\t if (!(n % factor)) {\\n\\t return false;\\n\\t }\\n\\t }\\n\\n\\t return true;\\n\\t }\\n\\n\\t function getFractionalBits(n) {\\n\\t return ((n - (n | 0)) * 0x100000000) | 0;\\n\\t }\\n\\n\\t var n = 2;\\n\\t var nPrime = 0;\\n\\t while (nPrime < 64) {\\n\\t if (isPrime(n)) {\\n\\t if (nPrime < 8) {\\n\\t H[nPrime] = getFractionalBits(Math.pow(n, 1 / 2));\\n\\t }\\n\\t K[nPrime] = getFractionalBi'..b' ((gamma0x << 14) | (gamma0x >>> 18)) ^\\n\\t (gamma0x >>> 3);\\n\\n\\t var gamma1x = W[i - 2];\\n\\t var gamma1 = ((gamma1x << 15) | (gamma1x >>> 17)) ^\\n\\t ((gamma1x << 13) | (gamma1x >>> 19)) ^\\n\\t (gamma1x >>> 10);\\n\\n\\t W[i] = gamma0 + W[i - 7] + gamma1 + W[i - 16];\\n\\t }\\n\\n\\t var ch = (e & f) ^ (~e & g);\\n\\t var maj = (a & b) ^ (a & c) ^ (b & c);\\n\\n\\t var sigma0 = ((a << 30) | (a >>> 2)) ^ ((a << 19) | (a >>> 13)) ^ ((a << 10) | (a >>> 22));\\n\\t var sigma1 = ((e << 26) | (e >>> 6)) ^ ((e << 21) | (e >>> 11)) ^ ((e << 7) | (e >>> 25));\\n\\n\\t var t1 = h + sigma1 + ch + K[i] + W[i];\\n\\t var t2 = sigma0 + maj;\\n\\n\\t h = g;\\n\\t g = f;\\n\\t f = e;\\n\\t e = (d + t1) | 0;\\n\\t d = c;\\n\\t c = b;\\n\\t b = a;\\n\\t a = (t1 + t2) | 0;\\n\\t }\\n\\n\\t // Intermediate hash value\\n\\t H[0] = (H[0] + a) | 0;\\n\\t H[1] = (H[1] + b) | 0;\\n\\t H[2] = (H[2] + c) | 0;\\n\\t H[3] = (H[3] + d) | 0;\\n\\t H[4] = (H[4] + e) | 0;\\n\\t H[5] = (H[5] + f) | 0;\\n\\t H[6] = (H[6] + g) | 0;\\n\\t H[7] = (H[7] + h) | 0;\\n\\t },\\n\\n\\t _doFinalize: function () {\\n\\t // Shortcuts\\n\\t var data = this._data;\\n\\t var dataWords = data.words;\\n\\n\\t var nBitsTotal = this._nDataBytes * 8;\\n\\t var nBitsLeft = data.sigBytes * 8;\\n\\n\\t // Add padding\\n\\t dataWords[nBitsLeft >>> 5] |= 0x80 << (24 - nBitsLeft % 32);\\n\\t dataWords[(((nBitsLeft + 64) >>> 9) << 4) + 14] = Math.floor(nBitsTotal / 0x100000000);\\n\\t dataWords[(((nBitsLeft + 64) >>> 9) << 4) + 15] = nBitsTotal;\\n\\t data.sigBytes = dataWords.length * 4;\\n\\n\\t // Hash final blocks\\n\\t this._process();\\n\\n\\t // Return final computed hash\\n\\t return this._hash;\\n\\t },\\n\\n\\t clone: function () {\\n\\t var clone = Hasher.clone.call(this);\\n\\t clone._hash = this._hash.clone();\\n\\n\\t return clone;\\n\\t }\\n\\t });\\n\\n\\t /**\\n\\t * Shortcut function to the hasher\'s object interface.\\n\\t *\\n\\t * @param {WordArray|string} message The message to hash.\\n\\t *\\n\\t * @return {WordArray} The hash.\\n\\t *\\n\\t * @static\\n\\t *\\n\\t * @example\\n\\t *\\n\\t * var hash = CryptoJS.SHA256(\'message\');\\n\\t * var hash = CryptoJS.SHA256(wordArray);\\n\\t */\\n\\t C.SHA256 = Hasher._createHelper(SHA256);\\n\\n\\t /**\\n\\t * Shortcut function to the HMAC\'s object interface.\\n\\t *\\n\\t * @param {WordArray|string} message The message to hash.\\n\\t * @param {WordArray|string} key The secret key.\\n\\t *\\n\\t * @return {WordArray} The HMAC.\\n\\t *\\n\\t * @static\\n\\t *\\n\\t * @example\\n\\t *\\n\\t * var hmac = CryptoJS.HmacSHA256(message, key);\\n\\t */\\n\\t C.HmacSHA256 = Hasher._createHmacHelper(SHA256);\\n\\t}(Math));\\n\\n\\n\\treturn CryptoJS.SHA256;\\n\\n}));"],"names":["CryptoJS","module","exports","Math","C","C_lib","lib","WordArray","Hasher","C_algo","algo","H","K","isPrime","n","sqrtN","sqrt","factor","getFractionalBits","nPrime","pow","W","SHA256","extend","_doReset","this","_hash","init","slice","_doProcessBlock","M","offset","words","a","b","c","d","e","f","g","h","i","gamma0x","gamma0","gamma1x","gamma1","maj","sigma0","t1","_doFinalize","data","_data","dataWords","nBitsTotal","_nDataBytes","nBitsLeft","sigBytes","floor","length","_process","clone","call","_createHelper","HmacSHA256","_createHmacHelper"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8435.484d30f8.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8435.484d30f8.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

b'@@ -0,0 +1,2 @@\n+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[8435],{48435:(n,e,a)=>{a.d(e,{doConnect:()=>L});class t{constructor(n=[],e){this.data={};const{checkIndent:a=!0,skipValidation:t=!1}=null!=e?e:{};let r,i,o;r="string"==typeof n?n.trimEnd().split(/\\r?\\n/):n||[];for(const n of r){if(""===n)throw new Error("Invalid stanza, contained blank lines");if(n.trim().startsWith("#"))continue;if(n.trimEnd().endsWith("\\\\")){const e=n.trimEnd().slice(0,-1);o?o+=e.trimStart():o=e;continue}let e=n;if(o&&(e=o+e.trimStart(),o=void 0),null!=i?i:a){const n=e.match(/^([ \\t]+)/);if(void 0===i)n?[,i]=n:i="";else if(""===i&&null!==n||i&&n&&i!==n[1])throw new Error("Inconsistent indentation of stanza")}else i="";const t=e.trim(),r=t.indexOf(" ");if(-1===r){if(!this.nameKey)throw new Error("First line in a stanza must have both a key and a value");if(this.data[t])continue;this.data[t]="";continue}const s=t.slice(0,r),c=t.slice(r+1);if(this.data[s]&&c!==this.data[s])throw new Error(`Got duplicate key with a different value in stanza: "${s}" key has both ${this.data[s]} and ${c}`);this.nameKey||(this.nameKey=s,this.name=t.slice(r+1)),this.data[s]=c}t||this.validate()}validate(){}}class r{constructor(n=[],e){this.data={};const{checkIndent:a=!0,skipValidation:r=!1}=null!=e?e:{};let i;i="string"==typeof n?n.trimEnd().split(/(?:[\\t ]*\\r?\\n){2,}/):n||[];for(const n of i){if(""===n)throw new Error("Invalid stanza, was empty");if(n.trim().startsWith("#")&&n.trimEnd().split(/\\r?\\n/).map((n=>n.trim())).every((n=>n.startsWith("#"))))continue;const e=new t(n,{checkIndent:a});if(this.nameKey){if(e.nameKey!==this.nameKey)throw new Error(`The first line in each stanza must have the same key. 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y=a(68584),w=a(32761);function k(n,e){return new URL(n,e).href}async function L(n){const e=(0,d.getSession)(n),a=[];try{const t=(0,y.getConf)(n,"hubTxtLocation"),r=await(0,h.openLocation)(t).readFile("utf8"),i=k(t.uri,t.baseUri),{assemblyManager:o}=e;if(r.includes("useOneFile on")){const a=new l(r),{genome:s,tracks:c}=a,d=s.name;o.get(d)||e.addSessionAssembly({name:d,sequence:{type:"ReferenceSequenceTrack",trackId:`${d}-${(0,w.Ak)()}`,adapter:{type:"TwoBitAdapter",twoBitLocation:{uri:k(s.data.twoBitPath,i)},chromSizesLocation:{uri:k(s.data.chromSizes,i)}}}});const h=o.get(d),m=g({trackDb:c,trackDbLoc:t,assemblyName:d,sequenceAdapter:(0,y.getConf)(h,["sequence","adapter"])});n.addTrackConfs(m)}else{const i=new c(r).data.genomesFile;if(!i)throw new Error("genomesFile not found on hub");const l=k(t.uri,t.baseUri),d=l?{uri:k(i,l),locationType:"UriLocation"}:{localPath:i,locationType:"LocalPathLocation"},m=await async function(n){const e=await(0,h.openLocation)(n).readFile("utf8");return new s(e)}(d),p={};for(const[e,t]of Object.entries(m.data)){const r=(0,y.getConf)(n,"assemblyNames");if(r.length>0&&!r.includes(e))continue;const s=o.get(e);if(!s){a.push(e);continue}const c=t.data.trackDb;if(!c)throw new Error("genomesFile not found on hub");const d=new URL(i,l),h=l?{uri:new URL(c,d).href,locationType:"UriLocation"}:{localPath:c,locationType:"LocalPathLocation"},m=g({trackDb:await u(h),trackDbLoc:h,assemblyName:e,sequenceAdapter:(0,y.getConf)(s,["sequence","adapter"])});n.addTrackConfs(m),p[e]=m.length}const b=Object.entries(p),f=b.length?`Loaded data from these assemblies: ${b.map((([n,e])=>`${n} (${e} tracks)`)).join(", ")}`:"",w=a.length?`Skipped data from these assemblies: ${a.join(", ")}`:"";e.notify([f,w].filter((n=>!!n)).join(". 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8435.484d30f8.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8435.484d30f8.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8483.7fadf4ea.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8483.7fadf4ea.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8483.7fadf4ea.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8483.7fadf4ea.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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CardActionArea.propTypes /* remove-proptypes */ = {\n // ┌────────────────────────────── Warning ──────────────────────────────┐\n // │ These PropTypes are generated from the TypeScript type definitions. │\n // │ To update them, edit the d.ts file and run `pnpm proptypes`. │\n // └─────────────────────────────────────────────────────────────────────┘\n /**\n * The content of the component.\n */\n children: PropTypes.node,\n /**\n * Override or extend the styles applied to the component.\n */\n classes: PropTypes.object,\n /**\n * @ignore\n */\n className: PropTypes.string,\n /**\n * @ignore\n */\n focusVisibleClassName: PropTypes.string,\n /**\n * The system prop that allows defining system overrides as well as additional CSS styles.\n */\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object])\n} : void 0;\nexport default CardActionArea;"],"names":["getCardActionAreaUtilityClass","slot","generateUtilityClass","generateUtilityClasses","CardActionAreaRoot","styled","ButtonBase","name","overridesResolver","props","styles","root","memoTheme","theme","display","textAlign","borderRadius","width","focusHighlight","opacity","vars","palette","action","hoverOpacity","focusVisible","focusOpacity","CardActionAreaFocusHighlight","overflow","pointerEvents","position","top","right","bottom","left","backgroundColor","transition","transitions","create","duration","short","inProps","ref","children","className","focusVisibleClassName","other","ownerState","classes","composeClasses","useUtilityClasses","clsx"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8526.5dd9c712.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8526.5dd9c712.chunk.js Sat Oct 05 23:58:05 2024 +0000

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8528.f68ff14f.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8528.f68ff14f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8535.189d090a.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8535.189d090a.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8535.189d090a.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8535.189d090a.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8546.0a89cbee.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8546.0a89cbee.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8546.0a89cbee.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8556.0053a402.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8556.0053a402.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8556.0053a402.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8556.0053a402.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8565.c4ea9980.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8582.9b93fffc.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8582.9b93fffc.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8615.0950a86f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8615.0950a86f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8624.190dd7af.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8624.190dd7af.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8624.190dd7af.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8624.190dd7af.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8678.8424d5dc.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8678.8424d5dc.chunk.js.map
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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8704.ae4808df.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8704.ae4808df.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8704.ae4808df.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8704.ae4808df.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8762.3d2b9142.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8762.3d2b9142.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8762.3d2b9142.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8762.3d2b9142.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8797.3168365d.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8797.3168365d.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8797.3168365d.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8797.3168365d.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8856.4593419f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8856.4593419f.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8856.4593419f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8856.4593419f.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8859.efb2561f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8859.efb2561f.chunk.js Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8859.efb2561f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8859.efb2561f.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8869.74066774.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8869.74066774.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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+  0% {
+    transform: rotate(0deg);
+  }
+
+  100% {
+    transform: rotate(360deg);
+  }
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+    stroke-dasharray: 1px, 200px;
+    stroke-dashoffset: 0;
+  }
+
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+    stroke-dashoffset: -15px;
+  }
+
+  100% {
+    stroke-dasharray: 100px, 200px;
+    stroke-dashoffset: -125px;
+  }
+`,p="string"!=typeof h?i.AH`
+        animation: ${h} 1.4s linear infinite;
+      `:null,y="string"!=typeof f?i.AH`
+        animation: ${f} 1.4s ease-in-out infinite;
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+//# sourceMappingURL=8869.74066774.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8869.74066774.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8869.74066774.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8876.24bf6aed.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8876.24bf6aed.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8876.24bf6aed.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8876.24bf6aed.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8880.6ae9d985.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8880.6ae9d985.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8880.6ae9d985.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8880.6ae9d985.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8929.70ce258f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8929.70ce258f.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[8929],{98929:(t,e,n)=>{n.r(e),n.d(e,{default:()=>l});var a=n(99834),s=n(99546),i=n(7706),o=n(35904);const r="undefined"!=typeof TextDecoder?new TextDecoder("utf8"):void 0;function c(t,e,n,a,s,i,o,r,c){return{qname:t,qstart:e,qend:n,tname:s,tstart:i,tend:o,strand:"-"===a?-1:1,extra:{numMatches:c,blockLen:Math.max(n-e,o-i),mappingQual:0,cg:r}}}class l extends o.default{async setupPre(t){const e=(0,a.openLocation)(this.getConf("chainLocation"),this.pluginManager),n=await e.readFile(t);return function(t){let e="",n=0,a=0,s="",i="",o="",l=0,u=0,d=0,h="";const p=[];let f=0;for(;f<t.length;){const b=t.indexOf("\n",f);if(-1===b)break;const g=t.subarray(f,b);f=b+1;const w=(r?.decode(g)||g.toString()).trim().replaceAll(" ","\t").split("\t");if("chain"===w[0]){if(h&&p.push(c(s,l,u,o,e,n,a,h,d)),e=w[2],n=+w[5],a=+w[6],s=w[7],i=w[8],o=w[9],l=+w[10],u=+w[11],"-"===o){const t=l;l=+i-u,u=+i-t}d=0,h=""}else{const t=+w[0]||0,e=w.length>1?+w[1]:0,n=w.length>2?+w[2]:0;0!==t&&(d+=+t,h+=`${t}M`),0!==n&&(h+=`${n}I`),0!==e&&(h+=`${e}D`)}}return h&&c(s,l,u,o,e,n,a,h,d),p}((0,s.isGzip)(n)?await(0,i.unzip)(n):n)}}}}]);
+//# sourceMappingURL=8929.70ce258f.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8929.70ce258f.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8929.70ce258f.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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IN NO EVENT SHALL THE\\n * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER\\n * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,\\n * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE\\n * SOFTWARE.\\n */\\n\\nfunction generate_record(\\n qname: string,\\n qstart: number,\\n qend: number,\\n qstrand: string,\\n tname: string,\\n tstart: number,\\n tend: number,\\n cigar: string,\\n numMatches: number,\\n) {\\n return {\\n qname,\\n qstart,\\n qend,\\n tname,\\n tstart,\\n tend,\\n strand: qstrand === \'-\' ? -1 : 1,\\n extra: {\\n numMatches,\\n blockLen: Math.max(qend - qstart, tend - tstart),\\n mappingQual: 0,\\n cg: cigar,\\n },\\n }\\n}\\n\\nexport function paf_chain2paf(buffer: Buffer) {\\n let t_name = \'\'\\n let t_start = 0\\n let t_end = 0\\n let q_name = \'\'\\n let q_size = \'\'\\n let q_strand = \'\'\\n let q_start = 0\\n let q_end = 0\\n let num_matches = 0\\n let cigar = \'\'\\n const records = []\\n\\n let blockStart = 0\\n while (blockStart < buffer.length) {\\n '..b'e-separated fields\\n const l_vec = l_tab.split(\'\\\\t\')\\n\\n if (l_vec[0] === \'chain\') {\\n // Emit previous PAF row, if available\\n if (cigar) {\\n records.push(\\n generate_record(\\n q_name,\\n q_start,\\n q_end,\\n q_strand,\\n t_name,\\n t_start,\\n t_end,\\n cigar,\\n num_matches,\\n ),\\n )\\n }\\n\\n // Save query/target information\\n // score -- chain score\\n // tName -- chromosome (reference sequence)\\n // tSize -- chromosome size (reference sequence)\\n // tStrand -- strand (reference sequence)\\n // tStart -- alignment start position (reference sequence)\\n // tEnd -- alignment end position (reference sequence)\\n // qName -- chromosome (query sequence)\\n // qSize -- chromosome size (query sequence)\\n // qStrand -- strand (query sequence)\\n // qStart -- alignment start position (query sequence)\\n // qEnd -- alignment end position (query sequence)\\n // id -- chain ID\\n t_name = l_vec[2]!\\n t_start = +l_vec[5]!\\n t_end = +l_vec[6]!\\n q_name = l_vec[7]!\\n q_size = l_vec[8]!\\n q_strand = l_vec[9]!\\n q_start = +l_vec[10]!\\n q_end = +l_vec[11]!\\n if (q_strand === \'-\') {\\n const tmp = q_start\\n q_start = +q_size - q_end\\n q_end = +q_size - tmp\\n }\\n\\n // Initialize PAF fields\\n num_matches = 0\\n cigar = \'\'\\n } else {\\n // size -- the size of the ungapped alignment\\n //\\n // dt -- the difference between the end of this block and the beginning\\n // of the next block (reference sequence)\\n //\\n // dq -- the difference between the end of this block and the beginning\\n // of the next block (query sequence)\\n const size_ungapped_alignment = +l_vec[0]! || 0\\n const diff_in_target = l_vec.length > 1 ? +l_vec[1]! : 0\\n const diff_in_query = l_vec.length > 2 ? +l_vec[2]! : 0\\n\\n if (size_ungapped_alignment !== 0) {\\n num_matches += +size_ungapped_alignment\\n cigar += `${size_ungapped_alignment}M`\\n }\\n if (diff_in_query !== 0) {\\n cigar += `${diff_in_query}I`\\n }\\n if (diff_in_target !== 0) {\\n cigar += `${diff_in_target}D`\\n }\\n }\\n }\\n\\n // Emit last PAF row, if available\\n if (cigar) {\\n generate_record(\\n q_name,\\n q_start,\\n q_end,\\n q_strand,\\n t_name,\\n t_start,\\n t_end,\\n cigar,\\n num_matches,\\n )\\n }\\n return records\\n}\\n","import { BaseOptions } from \'@jbrowse/core/data_adapters/BaseAdapter\'\\nimport { openLocation } from \'@jbrowse/core/util/io\'\\nimport { isGzip } from \'@jbrowse/core/util\'\\nimport { unzip } from \'@gmod/bgzf-filehandle\'\\nimport type { Buffer } from \'buffer\'\\n\\n// locals\\nimport PAFAdapter from \'../PAFAdapter/PAFAdapter\'\\nimport { paf_chain2paf } from \'./util\'\\n\\nexport default class ChainAdapter extends PAFAdapter {\\n async setupPre(opts?: BaseOptions) {\\n const loc = openLocation(this.getConf(\'chainLocation\'), this.pluginManager)\\n const buffer = (await loc.readFile(opts)) as Buffer\\n const buf = isGzip(buffer) ? await unzip(buffer) : buffer\\n return paf_chain2paf(buf)\\n }\\n}\\n"],"names":["decoder","TextDecoder","undefined","generate_record","qname","qstart","qend","qstrand","tname","tstart","tend","cigar","numMatches","strand","extra","blockLen","Math","max","mappingQual","cg","ChainAdapter","PAFAdapter","setupPre","opts","loc","openLocation","this","getConf","pluginManager","buffer","readFile","t_name","t_start","t_end","q_name","q_size","q_strand","q_start","q_end","num_matches","records","blockStart","length","n","indexOf","b","subarray","l_vec","decode","toString","trim","replaceAll","split","push","tmp","size_ungapped_alignment","diff_in_target","diff_in_query","paf_chain2paf","isGzip","unzip"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/8965.51db703f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8965.51db703f.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8965.51db703f.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/8984.1a816123.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/8984.1a816123.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9032.b54e1975.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9032.b54e1975.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9032.b54e1975.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9032.b54e1975.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9037.03715b7f.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9037.03715b7f.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9067.1cc02121.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9067.1cc02121.chunk.js Sat Oct 05 23:58:05 2024 +0000

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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9070.d49de235.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9070.d49de235.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9070.d49de235.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9070.d49de235.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9086.035adaa3.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9086.035adaa3.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9086.035adaa3.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9086.035adaa3.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9088.9fbbeb5c.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9088.9fbbeb5c.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9088.9fbbeb5c.chunk.js.map
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count: counts,\\n maxScore,\\n baseColor,\\n scale,\\n useLogScale,\\n })\\n ctx.fillRect((bin1 - offset) * w, (bin2 - offset) * w, w, w)\\n if (+Date.now() - start > 400) {\\n await abortBreakPoint(signal)\\n start = +Date.now()\\n }\\n }\\n ctx.restore()\\n }\\n return 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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9106.b274c701.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9106.b274c701.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9106.b274c701.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9106.b274c701.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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/**\\n * Override or extend the styles applied to the component.\\n */\\n classes: PropTypes.object,\\n /**\\n * @ignore\\n */\\n className: PropTypes.string,\\n /**\\n * The system prop that allows defining system overrides as well as additional CSS styles.\\n */\\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object])\\n} : void 0;\\nListItemSecondaryAction.muiName = \'ListItemSecondaryAction\';\\nexport default ListItemSecondaryAction;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getListItemSecondaryActionClassesUtilityClass(slot) {\\n return generateUtilityClass(\'MuiListItemSecondaryAction\', slot);\\n}\\nconst listItemSecondaryActionClasses = generateUtilityClasses(\'MuiListItemSecondaryAction\', [\'root\', \'disableGutters\']);\\nexport default 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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9114.d412d44e.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9114.d412d44e.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[9114],{9114:(e,t,a)=>{a.r(t),a.d(t,{default:()=>c});var n=a(7552),l=a(68984),r=a(99546),i=a(36715),s=a(87731);const u=(0,n.lazy)((()=>a.e(5930).then(a.bind(a,45930)))),o=(0,n.lazy)((()=>a.e(457).then(a.bind(a,80457))));function m({model:e,feature:t,viewType:a}){const l=(0,r.getSession)(e),m={uniqueId:t.uniqueId,refName:t.refName,start:t.start,end:t.end,strand:t.strand},d={uniqueId:`${t.id}-mate`,refName:t.next_ref,start:t.next_pos,end:t.next_pos+1,strand:t.strand};return n.createElement("div",null,n.createElement(i.A,null,"Launch split view"),n.createElement("ul",null,n.createElement("li",null,m.refName,":",(0,r.toLocale)(m.start)," -> ",d.refName,":",(0,r.toLocale)(d.start)," ",n.createElement(s.A,{href:"#",onClick:t=>{t.preventDefault(),l.queueDialog((t=>[u,{handleClose:t,model:e,feature:new r.SimpleFeature({...m,mate:d}),viewType:a,view:e.view,assemblyName:e.view.displayedRegions[0].assemblyName}]))}},"(top/bottom)")," ",n.createElement(s.A,{href:"#",onClick:t=>{t.preventDefault(),l.queueDialog((t=>[o,{handleClose:t,model:e,feature:new r.SimpleFeature({...m,mate:d}),viewType:a,view:e.view,assemblyName:e.view.displayedRegions[0].assemblyName}]))}},"(single row)"))))}function d(){return d=Object.assign?Object.assign.bind():function(e){for(var t=1;t<arguments.length;t++){var a=arguments[t];for(var n in a)({}).hasOwnProperty.call(a,n)&&(e[n]=a[n])}return e},d.apply(null,arguments)}function c(e){const{model:t,feature:a}=e,i=(0,r.getSession)(t),{pluginManager:s}=(0,r.getEnv)(i);let u;try{u=s.getViewType("BreakpointSplitView")}catch(e){}return n.createElement(l.BaseCard,d({},e,{title:"Supplementary alignments"}),u?n.createElement(m,{viewType:u,model:t,feature:a}):null)}}}]);
+//# sourceMappingURL=9114.d412d44e.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9114.d412d44e.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9114.d412d44e.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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(\n <LaunchPairedEndBreakpointSplitViewPanel\n viewType={viewType}\n model={model}\n feature={feature}\n />\n ) : null}\n </BaseCard>\n )\n}\n"],"names":["BreakendMultiLevelOptionDialog","lazy","BreakendSingleLevelOptionDialog","LaunchPairedEndBreakpointSplitViewPanel","model","feature","viewType","session","getSession","f1","uniqueId","refName","start","end","strand","f2","id","next_ref","next_pos","React","Typography","toLocale","Link","href","onClick","event","preventDefault","queueDialog","handleClose","SimpleFeature","mate","view","assemblyName","displayedRegions","SuppAlignments","props","pluginManager","getEnv","getViewType","e","BaseCard","_extends","title"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9168.6afdec67.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9168.6afdec67.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9168.6afdec67.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9168.6afdec67.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9206.bbf34514.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9206.bbf34514.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[9206,7489],{79206:(e,t,a)=>{a.r(t),a.d(t,{default:()=>o});var s=a(71616),n=a(99834),i=a(69870);class o extends i.default{async setupPre(){const e=this.getConf("fastaLocation"),t=this.getConf("faiLocation"),a=this.getConf("gziLocation"),i={fasta:(0,n.openLocation)(e,this.pluginManager),fai:(0,n.openLocation)(t,this.pluginManager),gzi:(0,n.openLocation)(a,this.pluginManager)};return{fasta:new s.tP(i)}}}},69870:(e,t,a)=>{a.r(t),a.d(t,{default:()=>f});var s=a(71616),n=a(46377),i=a(99834),o=a(66885),r=a(99546),c=a(47046),u=a(43334);class f extends n.BaseSequenceAdapter{seqCache=new c.A({cache:new u.A({maxSize:200}),fill:async(e,t)=>{const{refName:a,start:s,end:n,fasta:i}=e;return i.getSequence(a,s,n,{...e,signal:t})}});async getRefNames(e){const{fasta:t}=await this.setup();return t.getSequenceNames(e)}async getRegions(e){const{fasta:t}=await this.setup(),a=await t.getSequenceSizes(e);return Object.keys(a).map((e=>({refName:e,start:0,end:a[e]})))}async setupPre(){const e=this.getConf("fastaLocation"),t=this.getConf("faiLocation");return{fasta:new s.BL({fasta:(0,i.openLocation)(e,this.pluginManager),fai:(0,i.openLocation)(t,this.pluginManager)})}}async getHeader(){const e=this.getConf("metadataLocation");return""===e.uri||"/path/to/fa.metadata.yaml"===e.uri?null:(0,i.openLocation)(e,this.pluginManager).readFile("utf8")}async setup(){return this.setupP||(this.setupP=this.setupPre().catch((e=>{throw this.setupP=void 0,e}))),this.setupP}getFeatures(e,t){const{refName:a,start:s,end:n}=e;return(0,o.ObservableCreate)((async e=>{const{fasta:i}=await this.setup(),o=await i.getSequenceSize(a,t),c=Math.min(o,n),u=[],f=128e3,g=s-s%f,h=n+(f-n%f);for(let e=g;e<h;e+=f){const s={refName:a,start:e,end:e+f};u.push(this.seqCache.get(JSON.stringify(s),{...s,fasta:i},t?.signal))}const p=(await Promise.all(u)).join("").slice(s-g).slice(0,n-s);p&&e.next(new r.SimpleFeature({id:`${a} ${s}-${c}`,data:{refName:a,start:s,end:c,seq:p}})),e.complete()}))}freeResources(){}}}}]);
+//# sourceMappingURL=9206.bbf34514.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9206.bbf34514.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9206.bbf34514.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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null\n : openLocation(loc, this.pluginManager).readFile('utf8')\n }\n\n public async setup() {\n if (!this.setupP) {\n this.setupP = this.setupPre().catch((e: unknown) => {\n this.setupP = undefined\n throw e\n })\n }\n return this.setupP\n }\n\n public getFeatures(region: NoAssemblyRegion, opts?: BaseOptions) {\n const { refName, start, end } = region\n return ObservableCreate<Feature>(async observer => {\n const { fasta } = await this.setup()\n const size = await fasta.getSequenceSize(refName, opts)\n const regionEnd = Math.min(size, end)\n const chunks = []\n const chunkSize = 128000\n\n const s = start - (start % chunkSize)\n const e = end + (chunkSize - (end % chunkSize))\n for (let chunkStart = s; chunkStart < e; chunkStart += chunkSize) {\n const r = {\n refName,\n start: chunkStart,\n end: chunkStart + chunkSize,\n }\n chunks.push(\n this.seqCache.get(JSON.stringify(r), { ...r, fasta }, opts?.signal),\n )\n }\n const seq = (await Promise.all(chunks))\n .join('')\n .slice(start - s)\n .slice(0, end - start)\n if (seq) {\n observer.next(\n new SimpleFeature({\n id: `${refName} ${start}-${regionEnd}`,\n data: { refName, start, end: regionEnd, seq },\n }),\n )\n }\n observer.complete()\n })\n }\n\n /**\n * called to provide a hint that data tied to a certain region\n * will not be needed for the foreseeable future and can be purged\n * from caches, etc\n */\n public freeResources(/* { region } */): void {}\n}\n"],"names":["BgzipFastaAdapter","IndexedFasta","setupPre","fastaLocation","this","getConf","faiLocation","gziLocation","fastaOpts","fasta","openLocation","pluginManager","fai","gzi","BgzipIndexedFasta","IndexedFastaAdapter","BaseSequenceAdapter","seqCache","AbortablePromiseCache","cache","QuickLRU","maxSize","fill","async","args","signal","refName","start","end","getSequence","getRefNames","opts","setup","getSequenceNames","getRegions","seqSizes","getSequenceSizes","Object","keys","map","getHeader","loc","uri","readFile","setupP","catch","e","undefined","getFeatures","region","ObservableCreate","size","getSequenceSize","regionEnd","Math","min","chunks","chunkSize","s","chunkStart","r","push","get","JSON","stringify","seq","Promise","all","join","slice","observer","next","SimpleFeature","id","data","complete","freeResources"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9245.d882c265.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9245.d882c265.chunk.js Sat Oct 05 23:58:05 2024 +0000

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d=g.map((e=>e.toLowerCase()));class w{constructor({filehandle:e,path:t}){if(e)this.filehandle=e;else{if(!t)throw new Error("must supply path or filehandle");this.filehandle=new c.EY(t)}}async _detectEndianness(){const e=await this.filehandle.read(l.hp.allocUnsafe(8),0,8,0),{buffer:t}=e;if(t.readInt32LE(0)!==f)throw t.readInt32BE(0)===f?new Error("big endian not supported"):new Error("not a 2bit file");this.version=t.readInt32LE(4)}async getHeader(){await this._detectEndianness();const{buffer:e}=await this.filehandle.read(l.hp.allocUnsafe(16),0,16,0),t=e,n=!0,s=new DataView(t.buffer,t.byteOffset,t.length);let i=0;const a=s.getInt32(i,n);if(i+=4,440477507!==a)throw new Error(`Wrong magic number ${a}`);const r=s.getInt32(i,n);i+=4;const o=s.getUint32(i,n);return i+=4,{version:r,magic:a,sequenceCount:o,reserved:s.getUint32(i,n)}}async getIndex(){const e=await this.getHeader(),t=8+e.sequenceCount*(257+(1===this.version?8:4)),{buffer:n}=await 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e=r.getUint32(a,i);a+=4,f.push(e)}return{maskBlockCount:o,maskBlockSizes:f,maskBlockStarts:c,reserved:r.getInt32(a,i)}}async _getSequenceRecord(e){const t=await this._record1(e),n=8*t.nBlockCount+8,s=await this._record2(e+4,n),i=8*s.maskBlockCount+8,a=await this._record3(e+4+n-4,i);return{dnaSize:t.dnaSize,nBlocks:{starts:s.nBlockStarts,sizes:s.nBlockSizes},maskBlocks:{starts:a.maskBlockStarts,sizes:a.maskBlockSizes},dnaPosition:e+4+n-4+i}}async getSequence(e,t=0,n=Number.POSITIVE_INFINITY){const s=(await this.getIndex())[e];if(!s)return;const i=await this._getSequenceRecord(s);if(t<0)throw new TypeError("regionStart cannot be less than 0");(void 0===n||n>i.dnaSize)&&(n=i.dnaSize);const a=this._getOverlappingBlocks(t,n,i.nBlocks.starts,i.nBlocks.sizes),r=this._getOverlappingBlocks(t,n,i.maskBlocks.starts,i.maskBlocks.sizes),o=l.hp.allocUnsafe(Math.ceil((n-t)/4)+1),c=Math.floor(t/4),{buffer:f}=await this.filehandle.read(o,0,o.length,i.dnaPosition+c);let h="";for(let 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9280.6e897b98.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9280.6e897b98.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9292.96b77fb0.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9292.96b77fb0.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9292.96b77fb0.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9305.4d748fb5.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9305.4d748fb5.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9305.4d748fb5.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9305.4d748fb5.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9314.3e43d34c.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9314.3e43d34c.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9314.3e43d34c.chunk.js.map
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9329.c269472b.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9329.c269472b.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/937.4f610bdf.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/937.4f610bdf.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/937.4f610bdf.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/937.4f610bdf.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9372.67d6f914.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9372.67d6f914.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9372.67d6f914.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9374.8ac7e6d7.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9374.8ac7e6d7.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9374.8ac7e6d7.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9374.8ac7e6d7.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9384.a4e7a69a.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9384.a4e7a69a.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9409.c7569196.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9409.c7569196.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9449.2e1d2652.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9449.2e1d2652.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,2 @@
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+//# sourceMappingURL=9449.2e1d2652.chunk.js.map
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9449.2e1d2652.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9449.2e1d2652.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

@@ -0,0 +1,1 @@
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9458.07f0ae54.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9458.07f0ae54.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9458.07f0ae54.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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internal component.\\n */\\nimport { jsx as _jsx } from \\"react/jsx-runtime\\";\\nexport default createSvgIcon(/*#__PURE__*/_jsx(\\"path\\", {\\n d: \\"M19 13h-6v6h-2v-6H5v-2h6V5h2v6h6v2z\\"\\n}), \'Add\');","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getSpeedDialIconUtilityClass(slot) {\\n return generateUtilityClass(\'MuiSpeedDialIcon\', slot);\\n}\\nconst speedDialIconClasses = generateUtilityClasses(\'MuiSpeedDialIcon\', [\'root\', \'icon\', \'iconOpen\', \'iconWithOpenIconOpen\', \'openIcon\', \'openIconOpen\']);\\nexport default speedDialIconClasses;","\'use client\';\\n\\nimport * as React from \'react\';\\nimport PropTypes from \'prop-types\';\\nimport clsx from \'clsx\';\\nimport composeClasses from \'@mui/utils/composeClasses\';\\nimport { styled } from \\"../zero-styled/index.js\\";\\nimport memoTheme from \\"../utils/memoTheme.js\\";\\nimport { useDefaultProps } from \\"../DefaultPropsProvider/index.js\\";\\nimport AddIcon from \\"../internal/svg-icons/Add.js\\";\\nimport speedDialIconClasses, { getSpeedDialIconUtilityClass } from \\"./speedDialIconClasses.js\\";\\nimport { jsx as _jsx, jsxs as _jsxs } from \\"react/jsx-runtime\\";\\nconst useUtilityClasses = ownerState => {\\n const {\\n classes,\\n open,\\n openIcon\\n } = ownerState;\\n const slots = {\\n root: [\'root\'],\\n icon: [\'icon\', open && \'iconOpen\', openIcon && open && \'iconWithOpenIconOpen\'],\\n openIcon: [\'openIcon\', open && \'openIconOpen\']\\n };\\n return composeClasses(slots, getSpeedDialIconUtilityClass, classes);\\n};\\nconst SpeedDialIconRoot = styled(\'span\', {\\n name: \'Mui'..b'.short\\n })\\n },\\n [`& .${speedDialIconClasses.openIcon}`]: {\\n position: \'absolute\',\\n transition: theme.transitions.create([\'transform\', \'opacity\'], {\\n duration: theme.transitions.duration.short\\n }),\\n opacity: 0,\\n transform: \'rotate(-45deg)\'\\n },\\n variants: [{\\n props: ({\\n ownerState\\n }) => ownerState.open,\\n style: {\\n [`& .${speedDialIconClasses.icon}`]: {\\n transform: \'rotate(45deg)\'\\n }\\n }\\n }, {\\n props: ({\\n ownerState\\n }) => ownerState.open && ownerState.openIcon,\\n style: {\\n [`& .${speedDialIconClasses.icon}`]: {\\n opacity: 0\\n }\\n }\\n }, {\\n props: ({\\n ownerState\\n }) => ownerState.open,\\n style: {\\n [`& .${speedDialIconClasses.openIcon}`]: {\\n transform: \'rotate(0deg)\',\\n opacity: 1\\n }\\n }\\n }]\\n})));\\nconst SpeedDialIcon = /*#__PURE__*/React.forwardRef(function SpeedDialIcon(inProps, ref) {\\n const props = useDefaultProps({\\n props: inProps,\\n name: \'MuiSpeedDialIcon\'\\n });\\n const {\\n className,\\n icon: iconProp,\\n open,\\n openIcon: openIconProp,\\n ...other\\n } = props;\\n const ownerState = props;\\n const classes = useUtilityClasses(ownerState);\\n function formatIcon(icon, newClassName) {\\n if (/*#__PURE__*/React.isValidElement(icon)) {\\n return /*#__PURE__*/React.cloneElement(icon, {\\n className: newClassName\\n });\\n }\\n return icon;\\n }\\n return /*#__PURE__*/_jsxs(SpeedDialIconRoot, {\\n className: clsx(classes.root, className),\\n ref: ref,\\n ownerState: ownerState,\\n ...other,\\n children: [openIconProp ? formatIcon(openIconProp, classes.openIcon) : null, iconProp ? formatIcon(iconProp, classes.icon) : /*#__PURE__*/_jsx(AddIcon, {\\n className: classes.icon\\n })]\\n });\\n});\\nprocess.env.NODE_ENV !== \\"production\\" ? 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diff -r 137e08517410 -r 49f3d3878413 x/static/js/946.245d7df9.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/946.245d7df9.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/946.245d7df9.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/946.245d7df9.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9589.9087e0ea.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9589.9087e0ea.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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+"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[9589],{49589:(e,t,a)=>{a.r(t),a.d(t,{default:()=>m});var o=a(7552),l=a(68446),n=a(29499),r=a(36715),c=a(1343),s=a(58507),i=a(5401),h=a(49823);const u=(0,a(75785).n9)()({root:{width:500}}),m=(0,l.observer)((function(e){const{model:t,handleClose:a}=e,{classes:l}=u(),{maxHeight:m=""}=t,[b,d]=(0,o.useState)(`${m}`);return o.createElement(h.Dialog,{open:!0,onClose:a,title:"Set max height"},o.createElement(n.A,{className:l.root},o.createElement(r.A,null,'Set max height for the track. For example, you can increase this if the layout says "Max height reached"'),o.createElement(c.A,{value:b,autoFocus:!0,onChange:e=>{d(e.target.value)},placeholder:"Enter max height for layout"}),o.createElement(s.A,null,o.createElement(i.A,{variant:"contained",color:"primary",type:"submit",autoFocus:!0,onClick:()=>{t.setMaxHeight(""===b||Number.isNaN(+b)?void 0:+b),a()}},"Submit"),o.createElement(i.A,{variant:"contained",color:"secondary",onClick:()=>{a()}},"Cancel"))))}))}}]);
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9589.9087e0ea.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9589.9087e0ea.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

[

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+{"version":3,"file":"static/js/9589.9087e0ea.chunk.js","mappings":"gPAYA,MAAMA,GAAYC,E,SAAAA,KAAAA,CAAa,CAC7BC,KAAM,CACJC,MAAO,OA4DX,GAxD2BC,EAAAA,EAAAA,WAAS,SAAUC,GAO5C,MAAM,MAAEC,EAAK,YAAEC,GAAgBF,GACzB,QAAEG,GAAYR,KACd,UAAES,EAAY,IAAOH,GACpBI,EAAKC,IAAUC,EAAAA,EAAAA,UAAS,GAAGH,KAElC,OACEI,EAAAA,cAACC,EAAAA,OAAM,CAACC,MAAI,EAACC,QAAST,EAAaU,MAAM,kBACvCJ,EAAAA,cAACK,EAAAA,EAAa,CAACC,UAAWX,EAAQN,MAChCW,EAAAA,cAACO,EAAAA,EAAU,KAAC,4GAIZP,EAAAA,cAACQ,EAAAA,EAAS,CACRC,MAAOZ,EACPa,WAAS,EACTC,SAAUC,IACRd,EAAOc,EAAMC,OAAOJ,MAAM,EAE5BK,YAAY,gCAEdd,EAAAA,cAACe,EAAAA,EAAa,KACZf,EAAAA,cAACgB,EAAAA,EAAM,CACLC,QAAQ,YACRC,MAAM,UACNC,KAAK,SACLT,WAAS,EACTU,QAASA,KACP3B,EAAM4B,aACI,KAARxB,GAAeyB,OAAOC,OAAO1B,QAAc2B,GAAN3B,GAEvCH,GAAa,GAEhB,UAGDM,EAAAA,cAACgB,EAAAA,EAAM,CACLC,QAAQ,YACRC,MAAM,YACNE,QAASA,KACP1B,GAAa,GAEhB,YAOX,G","sources":["../../../plugins/alignments/src/LinearPileupDisplay/components/SetMaxHeightDialog.tsx"],"sourcesContent":["import React, { useState } from 'react'\nimport { observer } from 'mobx-react'\nimport {\n Button,\n DialogActions,\n DialogContent,\n TextField,\n Typography,\n} from '@mui/material'\nimport { Dialog } from '@jbrowse/core/ui'\nimport { makeStyles } from 'tss-react/mui'\n\nconst useStyles = makeStyles()({\n root: {\n width: 500,\n },\n})\n\nconst SetMaxHeightDialog = observer(function (props: {\n model: {\n maxHeight?: number\n setMaxHeight: (arg?: number) => void\n }\n handleClose: () => void\n}) {\n const { model, handleClose } = props\n const { classes } = useStyles()\n const { maxHeight = '' } = model\n const [max, setMax] = useState(`${maxHeight}`)\n\n return (\n <Dialog open onClose={handleClose} title=\"Set max height\">\n <DialogContent className={classes.root}>\n <Typography>\n Set max height for the track. For example, you can increase this if\n the layout says "Max height reached"\n </Typography>\n <TextField\n value={max}\n autoFocus\n onChange={event => {\n setMax(event.target.value)\n }}\n placeholder=\"Enter max height for layout\"\n />\n <DialogActions>\n <Button\n variant=\"contained\"\n color=\"primary\"\n type=\"submit\"\n autoFocus\n onClick={() => {\n model.setMaxHeight(\n max !== '' && !Number.isNaN(+max) ? +max : undefined,\n )\n handleClose()\n }}\n >\n Submit\n </Button>\n <Button\n variant=\"contained\"\n color=\"secondary\"\n onClick={() => {\n handleClose()\n }}\n >\n Cancel\n </Button>\n </DialogActions>\n </DialogContent>\n </Dialog>\n )\n})\nexport default SetMaxHeightDialog\n"],"names":["useStyles","makeStyles","root","width","observer","props","model","handleClose","classes","maxHeight","max","setMax","useState","React","Dialog","open","onClose","title","DialogContent","className","Typography","TextField","value","autoFocus","onChange","event","target","placeholder","DialogActions","Button","variant","color","type","onClick","setMaxHeight","Number","isNaN","undefined"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/965.8524fdac.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/965.8524fdac.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/965.8524fdac.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9657.0cccd5bf.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9657.0cccd5bf.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9657.0cccd5bf.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9658.33669a59.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9658.33669a59.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9658.33669a59.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9675.b4f16970.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9675.b4f16970.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9675.b4f16970.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9675.b4f16970.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9690.0cd8a2c8.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/972.c0d17685.chunk.js
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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9756.4ac80c37.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9756.4ac80c37.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9756.4ac80c37.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9756.4ac80c37.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9824.b9ece376.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9824.b9ece376.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9824.b9ece376.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9824.b9ece376.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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+{"version":3,"file":"static/js/9824.b9ece376.chunk.js","mappings":"0IASA,Q,QAJsC,e,oMCH/B,SAASA,EAA2BC,GACzC,OAAO,EAAAC,EAAA,IAAqB,iBAAkBD,EAChD,CACA,MACA,GAD2B,EAAAE,EAAA,GAAuB,iBAAkB,CAAC,S,eCMrE,MASMC,GAAkB,EAAAC,EAAA,IAAO,QAAS,CACtCC,KAAM,iBACNL,KAAM,OACNM,kBAAmB,CAACC,EAAOC,IAAWA,EAAOC,MAHvB,CAIrB,CACDC,QAAS,uBAELC,EAAY,CAChBC,QAAS,UAELC,EAAmB,QAuDzB,EAtDiC,cAAiB,SAAqBC,EAASC,GAC9E,MAAMR,GAAQ,OAAgB,CAC5BA,MAAOO,EACPT,KAAM,oBAEF,UACJW,EAAS,UACTC,EAAYJ,KACTK,GACDX,EACEY,EAAa,IACdZ,EACHU,aAEIG,EAlCkBD,KACxB,MAAM,QACJC,GACED,EAIJ,OAAO,EAAAE,EAAA,GAHO,CACZZ,KAAM,CAAC,SAEoBV,EAA4BqB,EAAQ,EA2BjDE,CAAkBH,GAClC,OAAoB,SAAKI,EAAA,EAAiBC,SAAU,CAClDC,MAAOd,EACPe,UAAuB,SAAKvB,EAAiB,CAC3CwB,GAAIV,EACJD,WAAW,EAAAY,EAAA,GAAKR,EAAQX,KAAMO,GAC9BD,IAAKA,EACLc,KAAMZ,IAAcJ,EAAmB,KAAO,WAC9CM,WAAYA,KACTD,KAGT,G","sources":["../../../node_modules/@mui/material/Table/Tablelvl2Context.js","../../../node_modules/@mui/material/TableFooter/tableFooterClasses.js","../../../node_modules/@mui/material/TableFooter/TableFooter.js"],"sourcesContent":["import * as React from 'react';\n\n/**\n * @ignore - internal component.\n */\nconst Tablelvl2Context = /*#__PURE__*/React.createContext();\nif (process.env.NODE_ENV !== 'production') {\n Tablelvl2Context.displayName = 'Tablelvl2Context';\n}\nexport default Tablelvl2Context;","import generateUtilityClasses from '@mui/utils/generateUtilityClasses';\nimport generateUtilityClass from '@mui/utils/generateUtilityClass';\nexport function getTableFooterUtilityClass(slot) {\n return generateUtilityClass('MuiTableFooter', slot);\n}\nconst tableFooterClasses = generateUtilityClasses('MuiTableFooter', ['root']);\nexport default tableFooterClasses;","'use client';\n\nimport * as React from 'react';\nimport PropTypes from 'prop-types';\nimport clsx from 'clsx';\nimport composeClasses from '@mui/utils/composeClasses';\nimport Tablelvl2Context from \"../Table/Tablelvl2Context.js\";\nimport { styled } from \"../zero-styled/index.js\";\nimport { useDefaultProps } from \"../DefaultPropsProvider/index.js\";\nimport { getTableFooterUtilityClass } from \"./tableFooterClasses.js\";\nimport { jsx as _jsx } from \"react/jsx-runtime\";\nconst useUtilityClasses = ownerState => {\n const {\n classes\n } = ownerState;\n const slots = {\n root: ['root']\n };\n return composeClasses(slots, getTableFooterUtilityClass, classes);\n};\nconst TableFooterRoot = styled('tfoot', {\n name: 'MuiTableFooter',\n slot: 'Root',\n overridesResolver: (props, styles) => styles.root\n})({\n display: 'table-footer-group'\n});\nconst tablelvl2 = {\n variant: 'footer'\n};\nconst defaultComponent = 'tfoot';\nconst TableFooter = /*#__PURE__*/React.forwardRef(function TableFooter(inProps, ref) {\n const props = useDefaultProps({\n props: inProps,\n name: 'MuiTableFooter'\n });\n const {\n className,\n component = defaultComponent,\n ...other\n } = props;\n const ownerState = {\n ...props,\n component\n };\n const classes = useUtilityClasses(ownerState);\n return /*#__PURE__*/_jsx(Tablelvl2Context.Provider, {\n value: tablelvl2,\n children: /*#__PURE__*/_jsx(TableFooterRoot, {\n as: component,\n className: clsx(classes.root, className),\n ref: ref,\n role: component === defaultComponent ? null : 'rowgroup',\n ownerState: ownerState,\n ...other\n })\n });\n});\nprocess.env.NODE_ENV !== \"production\" ? TableFooter.propTypes /* remove-proptypes */ = {\n // ┌────────────────────────────── Warning ──────────────────────────────┐\n // │ These PropTypes are generated from the TypeScript type definitions. │\n // │ To update them, edit the d.ts file and run `pnpm proptypes`. │\n // └─────────────────────────────────────────────────────────────────────┘\n /**\n * The content of the component, normally `TableRow`.\n */\n children: PropTypes.node,\n /**\n * Override or extend the styles applied to the component.\n */\n classes: PropTypes.object,\n /**\n * @ignore\n */\n className: PropTypes.string,\n /**\n * The component used for the root node.\n * Either a string to use a HTML element or a component.\n */\n component: PropTypes.elementType,\n /**\n * The system prop that allows defining system overrides as well as additional CSS styles.\n */\n sx: PropTypes.oneOfType([PropTypes.arrayOf(PropTypes.oneOfType([PropTypes.func, PropTypes.object, PropTypes.bool])), PropTypes.func, PropTypes.object])\n} : void 0;\nexport default TableFooter;"],"names":["getTableFooterUtilityClass","slot","generateUtilityClass","generateUtilityClasses","TableFooterRoot","styled","name","overridesResolver","props","styles","root","display","tablelvl2","variant","defaultComponent","inProps","ref","className","component","other","ownerState","classes","composeClasses","useUtilityClasses","Tablelvl2Context","Provider","value","children","as","clsx","role"],"sourceRoot":""}
\ No newline at end of file

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9831.de8b3aa9.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9831.de8b3aa9.chunk.js Sat Oct 05 23:58:05 2024 +0000

[

b'@@ -0,0 +1,2 @@\n+(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[9831],{29831:function(e,t,r){var i;e.exports=(i=r(17753),r(29038),r(1224),r(59982),r(47089),function(){var e=i,t=e.lib.BlockCipher,r=e.algo,n=[],s=[],o=[],c=[],a=[],h=[],f=[],u=[],d=[],l=[];!function(){for(var e=[],t=0;t<256;t++)e[t]=t<128?t<<1:t<<1^283;var r=0,i=0;for(t=0;t<256;t++){var p=i^i<<1^i<<2^i<<3^i<<4;p=p>>>8^255&p^99,n[r]=p,s[p]=r;var _=e[r],v=e[_],y=e[v],g=257*e[p]^16843008*p;o[r]=g<<24|g>>>8,c[r]=g<<16|g>>>16,a[r]=g<<8|g>>>24,h[r]=g,g=16843009*y^65537*v^257*_^16843008*r,f[p]=g<<24|g>>>8,u[p]=g<<16|g>>>16,d[p]=g<<8|g>>>24,l[p]=g,r?(r=_^e[e[e[y^_]]],i^=e[e[i]]):r=i=1}}();var p=[0,1,2,4,8,16,32,64,128,27,54],_=r.AES=t.extend({_doReset:function(){if(!this._nRounds||this._keyPriorReset!==this._key){for(var e=this._keyPriorReset=this._key,t=e.words,r=e.sigBytes/4,i=4*((this._nRounds=r+6)+1),s=this._keySchedule=[],o=0;o<i;o++)o<r?s[o]=t[o]:(h=s[o-1],o%r?r>6&&o%r==4&&(h=n[h>>>24]<<24|n[h>>>16&255]<<16|n[h>>>8&255]<<8|n[255&h]):(h=n[(h=h<<8|h>>>24)>>>24]<<24|n[h>>>16&255]<<16|n[h>>>8&255]<<8|n[255&h],h^=p[o/r|0]<<24),s[o]=s[o-r]^h);for(var c=this._invKeySchedule=[],a=0;a<i;a++){if(o=i-a,a%4)var h=s[o];else h=s[o-4];c[a]=a<4||o<=4?h:f[n[h>>>24]]^u[n[h>>>16&255]]^d[n[h>>>8&255]]^l[n[255&h]]}}},encryptBlock:function(e,t){this._doCryptBlock(e,t,this._keySchedule,o,c,a,h,n)},decryptBlock:function(e,t){var r=e[t+1];e[t+1]=e[t+3],e[t+3]=r,this._doCryptBlock(e,t,this._invKeySchedule,f,u,d,l,s),r=e[t+1],e[t+1]=e[t+3],e[t+3]=r},_doCryptBlock:function(e,t,r,i,n,s,o,c){for(var a=this._nRounds,h=e[t]^r[0],f=e[t+1]^r[1],u=e[t+2]^r[2],d=e[t+3]^r[3],l=4,p=1;p<a;p++){var _=i[h>>>24]^n[f>>>16&255]^s[u>>>8&255]^o[255&d]^r[l++],v=i[f>>>24]^n[u>>>16&255]^s[d>>>8&255]^o[255&h]^r[l++],y=i[u>>>24]^n[d>>>16&255]^s[h>>>8&255]^o[255&f]^r[l++],g=i[d>>>24]^n[h>>>16&255]^s[f>>>8&255]^o[255&u]^r[l++];h=_,f=v,u=y,d=g}_=(c[h>>>24]<<24|c[f>>>16&255]<<16|c[u>>>8&255]<<8|c[255&d])^r[l++],v=(c[f>>>24]<<24|c[u>>>16&255]<<16|c[d>>>8&255]<<8|c[255&h])^r[l++],y=(c[u>>>24]<<24|c[d>>>16&255]<<16|c[h>>>8&255]<<8|c[255&f])^r[l++],g=(c[d>>>24]<<24|c[h>>>16&255]<<16|c[f>>>8&255]<<8|c[255&u])^r[l++],e[t]=_,e[t+1]=v,e[t+2]=y,e[t+3]=g},keySize:8});e.AES=t._createHelper(_)}(),i.AES)},47089:function(e,t,r){var i,n,s,o,c,a,h,f,u,d,l,p,_,v,y,g,k,B,x;e.exports=(i=r(17753),r(59982),void(i.lib.Cipher||(n=i,s=n.lib,o=s.Base,c=s.WordArray,a=s.BufferedBlockAlgorithm,h=n.enc,h.Utf8,f=h.Base64,u=n.algo.EvpKDF,d=s.Cipher=a.extend({cfg:o.extend(),createEncryptor:function(e,t){return this.create(this._ENC_XFORM_MODE,e,t)},createDecryptor:function(e,t){return this.create(this._DEC_XFORM_MODE,e,t)},init:function(e,t,r){this.cfg=this.cfg.extend(r),this._xformMode=e,this._key=t,this.reset()},reset:function(){a.reset.call(this),this._doReset()},process:function(e){return this._append(e),this._process()},finalize:function(e){return e&&this._append(e),this._doFinalize()},keySize:4,ivSize:4,_ENC_XFORM_MODE:1,_DEC_XFORM_MODE:2,_createHelper:function(){function e(e){return"string"==typeof e?x:k}return function(t){return{encrypt:function(r,i,n){return e(i).encrypt(t,r,i,n)},decrypt:function(r,i,n){return e(i).decrypt(t,r,i,n)}}}}()}),s.StreamCipher=d.extend({_doFinalize:function(){return this._process(!0)},blockSize:1}),l=n.mode={},p=s.BlockCipherMode=o.extend({createEncryptor:function(e,t){return this.Encryptor.create(e,t)},createDecryptor:function(e,t){return this.Decryptor.create(e,t)},init:function(e,t){this._cipher=e,this._iv=t}}),_=l.CBC=function(){var e=p.extend();function t(e,t,r){var i,n=this._iv;n?(i=n,this._iv=void 0):i=this._prevBlock;for(var s=0;s<r;s++)e[t+s]^=i[s]}return e.Encryptor=e.extend({processBlock:function(e,r){var i=this._cipher,n=i.blockSize;t.call(this,e,r,n),i.encryptBlock(e,r),this._prevBlock=e.slice(r,r+n)}}),e.Decryptor=e.extend({processBlock:function(e,r){var i=this._cipher,n=i.blockSize,s=e.slice(r,r+n);i.decryptBlock(e,r),t.call(this,e,r,n),this._prevBlock=s}}),e}'..b'.sin(t+1))|0}();var a=o.MD5=s.extend({_doReset:function(){this._hash=new n.init([1732584193,4023233417,2562383102,271733878])},_doProcessBlock:function(e,t){for(var r=0;r<16;r++){var i=t+r,n=e[i];e[i]=16711935&(n<<8|n>>>24)|4278255360&(n<<24|n>>>8)}var s=this._hash.words,o=e[t+0],a=e[t+1],l=e[t+2],p=e[t+3],_=e[t+4],v=e[t+5],y=e[t+6],g=e[t+7],k=e[t+8],B=e[t+9],x=e[t+10],m=e[t+11],S=e[t+12],z=e[t+13],b=e[t+14],C=e[t+15],M=s[0],w=s[1],D=s[2],E=s[3];M=h(M,w,D,E,o,7,c[0]),E=h(E,M,w,D,a,12,c[1]),D=h(D,E,M,w,l,17,c[2]),w=h(w,D,E,M,p,22,c[3]),M=h(M,w,D,E,_,7,c[4]),E=h(E,M,w,D,v,12,c[5]),D=h(D,E,M,w,y,17,c[6]),w=h(w,D,E,M,g,22,c[7]),M=h(M,w,D,E,k,7,c[8]),E=h(E,M,w,D,B,12,c[9]),D=h(D,E,M,w,x,17,c[10]),w=h(w,D,E,M,m,22,c[11]),M=h(M,w,D,E,S,7,c[12]),E=h(E,M,w,D,z,12,c[13]),D=h(D,E,M,w,b,17,c[14]),M=f(M,w=h(w,D,E,M,C,22,c[15]),D,E,a,5,c[16]),E=f(E,M,w,D,y,9,c[17]),D=f(D,E,M,w,m,14,c[18]),w=f(w,D,E,M,o,20,c[19]),M=f(M,w,D,E,v,5,c[20]),E=f(E,M,w,D,x,9,c[21]),D=f(D,E,M,w,C,14,c[22]),w=f(w,D,E,M,_,20,c[23]),M=f(M,w,D,E,B,5,c[24]),E=f(E,M,w,D,b,9,c[25]),D=f(D,E,M,w,p,14,c[26]),w=f(w,D,E,M,k,20,c[27]),M=f(M,w,D,E,z,5,c[28]),E=f(E,M,w,D,l,9,c[29]),D=f(D,E,M,w,g,14,c[30]),M=u(M,w=f(w,D,E,M,S,20,c[31]),D,E,v,4,c[32]),E=u(E,M,w,D,k,11,c[33]),D=u(D,E,M,w,m,16,c[34]),w=u(w,D,E,M,b,23,c[35]),M=u(M,w,D,E,a,4,c[36]),E=u(E,M,w,D,_,11,c[37]),D=u(D,E,M,w,g,16,c[38]),w=u(w,D,E,M,x,23,c[39]),M=u(M,w,D,E,z,4,c[40]),E=u(E,M,w,D,o,11,c[41]),D=u(D,E,M,w,p,16,c[42]),w=u(w,D,E,M,y,23,c[43]),M=u(M,w,D,E,B,4,c[44]),E=u(E,M,w,D,S,11,c[45]),D=u(D,E,M,w,C,16,c[46]),M=d(M,w=u(w,D,E,M,l,23,c[47]),D,E,o,6,c[48]),E=d(E,M,w,D,g,10,c[49]),D=d(D,E,M,w,b,15,c[50]),w=d(w,D,E,M,v,21,c[51]),M=d(M,w,D,E,S,6,c[52]),E=d(E,M,w,D,p,10,c[53]),D=d(D,E,M,w,x,15,c[54]),w=d(w,D,E,M,a,21,c[55]),M=d(M,w,D,E,k,6,c[56]),E=d(E,M,w,D,C,10,c[57]),D=d(D,E,M,w,y,15,c[58]),w=d(w,D,E,M,z,21,c[59]),M=d(M,w,D,E,_,6,c[60]),E=d(E,M,w,D,m,10,c[61]),D=d(D,E,M,w,l,15,c[62]),w=d(w,D,E,M,B,21,c[63]),s[0]=s[0]+M|0,s[1]=s[1]+w|0,s[2]=s[2]+D|0,s[3]=s[3]+E|0},_doFinalize:function(){var t=this._data,r=t.words,i=8*this._nDataBytes,n=8*t.sigBytes;r[n>>>5]|=128<<24-n%32;var s=e.floor(i/4294967296),o=i;r[15+(n+64>>>9<<4)]=16711935&(s<<8|s>>>24)|4278255360&(s<<24|s>>>8),r[14+(n+64>>>9<<4)]=16711935&(o<<8|o>>>24)|4278255360&(o<<24|o>>>8),t.sigBytes=4*(r.length+1),this._process();for(var c=this._hash,a=c.words,h=0;h<4;h++){var f=a[h];a[h]=16711935&(f<<8|f>>>24)|4278255360&(f<<24|f>>>8)}return c},clone:function(){var e=s.clone.call(this);return e._hash=this._hash.clone(),e}});function h(e,t,r,i,n,s,o){var c=e+(t&r|~t&i)+n+o;return(c<<s|c>>>32-s)+t}function f(e,t,r,i,n,s,o){var c=e+(t&i|r&~i)+n+o;return(c<<s|c>>>32-s)+t}function u(e,t,r,i,n,s,o){var c=e+(t^r^i)+n+o;return(c<<s|c>>>32-s)+t}function d(e,t,r,i,n,s,o){var c=e+(r^(t|~i))+n+o;return(c<<s|c>>>32-s)+t}t.MD5=s._createHelper(a),t.HmacMD5=s._createHmacHelper(a)}(Math),i.MD5)},62555:function(e,t,r){var i,n,s,o,c,a,h,f;e.exports=(n=(i=f=r(17753)).lib,s=n.WordArray,o=n.Hasher,c=i.algo,a=[],h=c.SHA1=o.extend({_doReset:function(){this._hash=new s.init([1732584193,4023233417,2562383102,271733878,3285377520])},_doProcessBlock:function(e,t){for(var r=this._hash.words,i=r[0],n=r[1],s=r[2],o=r[3],c=r[4],h=0;h<80;h++){if(h<16)a[h]=0|e[t+h];else{var f=a[h-3]^a[h-8]^a[h-14]^a[h-16];a[h]=f<<1|f>>>31}var u=(i<<5|i>>>27)+c+a[h];u+=h<20?1518500249+(n&s|~n&o):h<40?1859775393+(n^s^o):h<60?(n&s|n&o|s&o)-1894007588:(n^s^o)-899497514,c=o,o=s,s=n<<30|n>>>2,n=i,i=u}r[0]=r[0]+i|0,r[1]=r[1]+n|0,r[2]=r[2]+s|0,r[3]=r[3]+o|0,r[4]=r[4]+c|0},_doFinalize:function(){var e=this._data,t=e.words,r=8*this._nDataBytes,i=8*e.sigBytes;return t[i>>>5]|=128<<24-i%32,t[14+(i+64>>>9<<4)]=Math.floor(r/4294967296),t[15+(i+64>>>9<<4)]=r,e.sigBytes=4*t.length,this._process(),this._hash},clone:function(){var e=o.clone.call(this);return e._hash=this._hash.clone(),e}}),i.SHA1=o._createHelper(h),i.HmacSHA1=o._createHmacHelper(h),f.SHA1)}}]);\n+//# sourceMappingURL=9831.de8b3aa9.chunk.js.map\n\\ No newline at end of file\n'

diff -r 137e08517410 -r 49f3d3878413 x/static/js/9831.de8b3aa9.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9831.de8b3aa9.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9870.f395e633.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9870.f395e633.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9870.f395e633.chunk.js.map
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9870.f395e633.chunk.js.map Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/9943.d3ab0f18.chunk.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/9943.d3ab0f18.chunk.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/main.1532dd54.js
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/main.1532dd54.js Sat Oct 05 23:58:05 2024 +0000

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diff -r 137e08517410 -r 49f3d3878413 x/static/js/main.1532dd54.js.LICENSE.txt
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/x/static/js/main.1532dd54.js.LICENSE.txt Sat Oct 05 23:58:05 2024 +0000

@@ -0,0 +1,56 @@
+/**
+ * @license React
+ * react-dom.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/**
+ * @license React
+ * react-jsx-runtime.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/**
+ * @license React
+ * react.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/**
+ * @license React
+ * scheduler.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/**
+ * @mui/styled-engine v6.1.1
+ *
+ * @license MIT
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */
+
+/** @license React v16.13.1
+ * react-is.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
+ */

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--- /dev/null Thu Jan 01 00:00:00 1970 +0000
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