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Changeset 132:1efcc387bef4 (2024-10-17)

Previous changeset 131:69c6ea16c148 (2024-10-12) Next changeset 133:cec274db51c0 (2024-10-18)

Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit b76c8cc45b31e105e6bb51abc5a5728cfd3e3f99

modified:
jbrowse2.py
jbrowse2.xml
macros.xml

diff -r 69c6ea16c148 -r 1efcc387bef4 __pycache__/jbrowse2.cpython-312.pyc

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

diff -r 69c6ea16c148 -r 1efcc387bef4 filter_multihit_paf.py
--- a/filter_multihit_paf.py Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,94 +0,0 @@
-# idea from https://github.com/marbl/MashMap/blob/master/scripts/denovo_repeat_annotation.py
-# adds filter for more than minMatch denovo repeated paf read locations: >1 gives ~13%, >3 gives 3% of all hits in testing a big and small paf.
-# A haplotype paf filtered of denovo repeats might give cleaner dotplots, because they add visual noise and repeats are less informative for sequence similarity.
-# Alternative to use repeatmasked haplotype as the mashmap reference might also be useful.
-# Also outputs a bed with the multimatch regions filtered from the paf with their repeat count as the score
-# ross lazarus october 6 2024
-
-import argparse
-
-from collections import OrderedDict
-
-
-def pafDeDupe(inPaf, outDeNovoBed, outPaf, minMatch):
-    """
-    Usage notes:
-    if a segment appears more than once on the left of a paf row, it can be considered a denovo repeat!
-    Contig and start offset are used as the id so approximate-ish.
-    Seems a consistent 13% 1+ denovo repeats with different levels of identity and match length
-    3+ finds a much lower 3% of hits
-
-    With a 181217 row squirrelhaps1k.paf at 1k 99%, get about 13% denovo repeat rows
-    (venv311) ross@pn50:~/rossgit/galaxytools/tools/jbrowse2$ python filter_multihit_paf.py --inpaf squirrelhaps1k.paf --outbed sh1k.bed --outpaf sh1kdedupe.paf --minMatch 1
-    (venv311) ross@pn50:~/rossgit/galaxytools/tools/jbrowse2$ wc -l sh1kdedupe.paf
-    109179 sh1kdedupe.paf
-    (venv311) ross@pn50:~/rossgit/galaxytools/tools/jbrowse2$ wc -l sh1k.bed
-    23015 sh1k.bed
-
-    venv311) ross@pn50:~/rossgit/galaxytools/tools/jbrowse2$ python filter_multihit_paf.py --inpaf squirrelhaps1k.paf --outbed sh1k.bed --outpaf sh1kdedupe.paf --minMatch 3
-    (venv311) ross@pn50:~/rossgit/galaxytools/tools/jbrowse2$ wc -l sh1k.bed
-    7996 sh1k.bed
-
-    with a smaller 26610 10k 95%, get about
-    (venv3row 11) ross@pn50:~/rossgit/galaxytools/tools/jbrowse2$ wc -l squirrelhaps.paf
-    26610 squirrelhaps.paf
-    (venv311) ross@pn50:~/rossgit/galaxytools/tools/jbrowse2$ python filter_multihit_paf.py squirrelhaps.paf sh.bed shdedupe.paf
-    (venv311) ross@pn50:~/rossgit/galaxytools/tools/jbrowse2$ wc -l shdedupe.paf
-    18332 shdedupe.paf
-    (venv311) ross@pn50:~/rossgit/galaxytools/tools/jbrowse2$ wc -l sh.bed
-    3663 sh.bed
-    """
-
-    CHROMOSOMECOL1 = 0
-    STARTCOL1 = 2
-    ENDCOL1 = 3
-    hitTable1 = OrderedDict()
-    hitTable1_lens = {}
-    filterLen = minMatch
-    minMatch = int(minMatch)
-    filterMe = {}
-
-    with open(inPaf) as f:
-        for i, line in enumerate(f):
-            rowElements = line.split()
-            chromosome1 = rowElements[CHROMOSOMECOL1]
-            start1 = int(rowElements[STARTCOL1])
-            end1 = int(rowElements[ENDCOL1])
-            h1key = "%s~%d" % (chromosome1, start1)
-            if hitTable1.get(h1key, None):
-                hitTable1[h1key].append(i)
-                if len(hitTable1[h1key]) > minMatch:
-                    filterMe[i] = i
-            else:
-                hitTable1[h1key] = [
-                    i,
-                ]
-                hitTable1_lens[h1key] = abs(end1 - start1)
-    with open(outDeNovoBed, "w") as f:
-        for k in hitTable1.keys():
-            # OrderedDict so input paf order preserved - if that's wrong so is the bed.
-            nk = len(hitTable1[k])
-            if nk > minMatch:
-                (chr, start) = k.split("~")
-                end = int(start) + hitTable1_lens.get(k, 0)
-                name= '_'.join([chr,start])
-                row = (chr, start, "%d" % end, name, "%d" % nk)
-                f.write("\t".join(row))
-                f.write("\n")
-    with open(outPaf, "w") as f:
-        f.writelines(
-        line for i, line in enumerate(open(inPaf)) if not filterMe.get(i, None)
-    )
-
-
-if __name__ == "__main__":
-    VERS = 0.01
-    parser = argparse.ArgumentParser()
-    a = parser.add_argument
-    a("--inpaf", default=None)
-    a("--outbed", default=None)
-    a("--outpaf", default=None)
-    a("--minmatch", default=1, type=int)
-    a('--version', action='version', version='%(prog)s 0.1')
-    args = parser.parse_args()
-    pafDeDupe(args.inpaf, args.outbed, args.outpaf, args.minmatch)

diff -r 69c6ea16c148 -r 1efcc387bef4 foo
--- a/foo Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,7 +0,0 @@
-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 69c6ea16c148 -r 1efcc387bef4 jbrowse2.py
--- a/jbrowse2.py Sat Oct 12 23:11:22 2024 +0000
+++ b/jbrowse2.py Thu Oct 17 11:58:53 2024 +0000

[

@@ -1130,18 +1130,24 @@
         self.trackIdlist.append(tId)

     def add_paf(self, data, trackData, pafOpts, **kwargs):
+        canPIF = False
         tname = trackData["name"]
         tId = trackData["label"]
         url = tId
-        usePIF = False  # much faster if indexed remotely or locally
+        usePIF = False  # much faster if indexed remotely or locally but broken in biocontainer.
         useuri = data.startswith("http://") or data.startswith("https://")
         if not useuri:
-            url = "%s.pif.gz" % tId
-            cmd = "sort -b -k1,1 -k2,3n -k3,4n '%s' | bgzip -c > '%s'" % (data, url)
-            self.subprocess_popen(cmd)
-            cmd = ["tabix", "-b", "3", "-e", "4", "-f", url]
-            self.subprocess_check_call(cmd)
-            usePIF = True
+            if canPIF:
+                fakeName = '%s.paf' % tId
+                url = "%s.pif.gz" % tId
+                cmd = ["cp", data, fakeName]
+                self.subprocess_check_call(cmd)
+                cmd = ["jbrowse", "make-pif", fakeName]  # jbrowse pif input.paf --out output.pif.gz # specify output file, creates output.pif.gz.tbi also
+                self.subprocess_check_call(cmd)
+                usePIF = True
+            else:
+                dest = os.path.join(self.outdir, url)
+                self.symlink_or_copy(os.path.realpath(data), dest)
         else:
             url = data
             if data.endswith(".pif.gz") or data.endswith(".paf.gz"):  # is tabix

diff -r 69c6ea16c148 -r 1efcc387bef4 jbrowse2.xml
--- a/jbrowse2.xml Sat Oct 12 23:11:22 2024 +0000
+++ b/jbrowse2.xml Thu Oct 17 11:58:53 2024 +0000

@@ -666,11 +666,16 @@
                     <has_archive_member path="merlinlastz.maf_6.sorted.bed.gz.tbi"/>
                     <has_archive_member path="merlin.blastxml_7.gz"/>
                     <has_archive_member path="dm3test.cool_9.hic"/>
-                    <has_archive_member path="peach-grape-map.paf_10.pif.gz"/>
-                    <has_archive_member path="peach-grape-map.paf_10.pif.gz.tbi"/>
+                    <has_archive_member path="peach-grape-map.paf_10"/>
                     <has_archive_member path="arabgrapepeach.paf_11"/>
-                    <has_archive_member path="arabgrapepeach.paf_11.pif.gz"/>
-                    <has_archive_member path="arabgrapepeach.paf_11.pif.gz.tbi"/>
+                    <has_archive_member path="Merlin.fa.gz.fai"/>
+                    <has_archive_member path="dm3.fa.fa.gz.fai"/>
+                    <has_archive_member path="Ppersica1.fa.fa.gz"/>
+                    <has_archive_member path="Ppersica1.fa.fa.gz.fai"/>
+                    <has_archive_member path="Ppersica1.fa.fa.gz.gzi"/>
+                    <has_archive_member path="Vvinifera1.fa.fa.gz.fai"/>
+                    <has_archive_member path="Vvinifera1.fa.fa.gz"/>
+                    <has_archive_member path="Vvinifera1.fa.fa.gz.gzi"/>
                     <has_archive_member path="Merlin.fa.gz.fai"/>
                     <has_archive_member path="dm3.fa.fa.gz.fai"/>
                     <has_archive_member path="Ppersica1.fa.fa.gz"/>
@@ -680,9 +685,7 @@
                     <has_archive_member path="Vvinifera1.fa.fa.gz"/>
                     <has_archive_member path="Vvinifera1.fa.fa.gz.gzi"/>
                     <has_archive_member path="config.json">
-                        <has_json_property_with_text property="type" text="PairwiseIndexedPAFAdapter"/>
-                        <has_json_property_with_text property="uri" text="peach-grape-map.paf_10.pif.gz.tbi"/>
-                        <has_json_property_with_text property="uri" text="peach-grape-map.paf_10.pif.gz"/>
+                        <has_json_property_with_text property="uri" text="Vvinifera1.fa.fa.gz.fai"/>
                     </has_archive_member>
                 </assert_contents>
             </output>

diff -r 69c6ea16c148 -r 1efcc387bef4 macros.xml
--- a/macros.xml Sat Oct 12 23:11:22 2024 +0000
+++ b/macros.xml Thu Oct 17 11:58:53 2024 +0000

@@ -25,7 +25,7 @@
         </requirements>
     </xml>
     <token name="@DATA_DIR@">\$GALAXY_JBROWSE_SHARED_DIR</token>
-    <token name="@VERSION_SUFFIX@">5</token>
+    <token name="@VERSION_SUFFIX@">6</token>
     <xml name="creators">
         <creator>
             <person givenName="Helena" familyName="Rasche" url="https://github.com/hexylena"/>

diff -r 69c6ea16c148 -r 1efcc387bef4 sh.bed
--- a/sh.bed Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 sh1k.bed
--- a/sh1k.bed Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 sh1kdedupe.paf
--- a/sh1kdedupe.paf Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,109174 +0,0 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diff -r 69c6ea16c148 -r 1efcc387bef4 shdedupe.paf
--- a/shdedupe.paf Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,18267 +0,0 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diff -r 69c6ea16c148 -r 1efcc387bef4 squirrelhaps.paf
--- a/squirrelhaps.paf Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,26610 +0,0 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diff -r 69c6ea16c148 -r 1efcc387bef4 squirrelhaps1k.paf
--- a/squirrelhaps1k.paf Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,181217 +0,0 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diff -r 69c6ea16c148 -r 1efcc387bef4 test-data/vcf/merlin.vcf.2
--- a/test-data/vcf/merlin.vcf.2 Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,23 +0,0 @@
-##fileformat=VCFv4.0
-##fileDate=20090805
-##source=myImputationProgramV3.1
-##reference=1000GenomesPilot-NCBI36
-##phasing=partial
-##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data">
-##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
-##INFO=<ID=AF,Number=.,Type=Float,Description="Allele Frequency">
-##INFO=<ID=AA,Number=1,Type=String,Description="Ancestral Allele">
-##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP membership, build 129">
-##INFO=<ID=H2,Number=0,Type=Flag,Description="HapMap2 membership">
-##FILTER=<ID=q10,Description="Quality below 10">
-##FILTER=<ID=s50,Description="Less than 50% of samples have data">
-##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
-##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
-##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
-##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality">
-#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA00001 NA00002 NA00003
-Merlin 14370 rs6054257 G A 29 PASS NS=3;DP=14;AF=0.5;DB;H2 GT:GQ:DP:HQ 0|0:48:1:51,51 1|0:48:8:51,51 1/1:43:5:.,.
-Merlin 17330 . T A 3 q10 NS=3;DP=11;AF=0.017 GT:GQ:DP:HQ 0|0:49:3:58,50 0|1:3:5:65,3 0/0:41:3
-Merlin 1110696 rs6040355 A G,T 67 PASS NS=2;DP=10;AF=0.333,0.667;AA=T;DB GT:GQ:DP:HQ 1|2:21:6:23,27 2|1:2:0:18,2 2/2:35:4
-Merlin 1230237 . T . 47 PASS NS=3;DP=13;AA=T GT:GQ:DP:HQ 0|0:54:7:56,60 0|0:48:4:51,51 0/0:61:2
-Merlin 1234567 microsat1 GTCT G,GTACT 50 PASS NS=3;DP=9;AA=G GT:GQ:DP 0/1:35:4 0/2:17:2 1/1:40:3

diff -r 69c6ea16c148 -r 1efcc387bef4 test-data/vcf/merlinold.vcf
--- a/test-data/vcf/merlinold.vcf Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,23 +0,0 @@
-##fileformat=VCFv4.0
-##fileDate=20090805
-##source=myImputationProgramV3.1
-##reference=1000GenomesPilot-NCBI36
-##phasing=partial
-##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data">
-##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
-##INFO=<ID=AF,Number=.,Type=Float,Description="Allele Frequency">
-##INFO=<ID=AA,Number=1,Type=String,Description="Ancestral Allele">
-##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP membership, build 129">
-##INFO=<ID=H2,Number=0,Type=Flag,Description="HapMap2 membership">
-##FILTER=<ID=q10,Description="Quality below 10">
-##FILTER=<ID=s50,Description="Less than 50% of samples have data">
-##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
-##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
-##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
-##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality">
-#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA00001 NA00002 NA00003
-Merlin 61 rs6054257 G A 29 PASS NS=3;DP=14;AF=0.5;DB;H2 GT:GQ:DP:HQ 0|0:48:1:51,51 1|0:48:8:51,51 1/1:43:5:.,.
-Merlin 122 . T A 3 q10 NS=3;DP=11;AF=0.017 GT:GQ:DP:HQ 0|0:49:3:58,50 0|1:3:5:65,3 0/0:41:3
-Merlin 488 rs6040355 A G,T 67 PASS NS=2;DP=10;AF=0.333,0.667;AA=T;DB GT:GQ:DP:HQ 1|2:21:6:23,27 2|1:2:0:18,2 2/2:35:4
-Merlin 549 . T . 47 PASS NS=3;DP=13;AA=T GT:GQ:DP:HQ 0|0:54:7:56,60 0|0:48:4:51,51 0/0:61:2
-Merlin 1098 microsat1 G,GTACT 50 PASS NS=3;DP=9;AA=G GT:GQ:DP 0/1:35:4 0/2:17:2 1/1:40:3

diff -r 69c6ea16c148 -r 1efcc387bef4 test.bed
--- a/test.bed Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,4006 +0,0 @@\n-SUPER_1 14830000 14840000 SUPER_1~14830000 2\n-SUPER_1 55680000 55690000 SUPER_1~55680000 2\n-SUPER_1 55690000 55690000 SUPER_1~55690000 4\n-SUPER_1 55710000 55710000 SUPER_1~55710000 3\n-SUPER_1 55720000 55720000 SUPER_1~55720000 4\n-SUPER_1 83690000 83700000 SUPER_1~83690000 6\n-SUPER_1 107760000 107780000 SUPER_1~107760000 2\n-SUPER_1 107800000 107840000 SUPER_1~107800000 3\n-SUPER_1 107810000 107830000 SUPER_1~107810000 2\n-SUPER_1 108170000 108200000 SUPER_1~108170000 2\n-SUPER_1 117460000 117480000 SUPER_1~117460000 2\n-SUPER_1 117550000 117550000 SUPER_1~117550000 3\n-SUPER_1 117560000 117560000 SUPER_1~117560000 3\n-SUPER_1 123740000 124980000 SUPER_1~123740000 2\n-SUPER_1 129250000 129350000 SUPER_1~129250000 2\n-SUPER_1 160420000 160430000 SUPER_1~160420000 2\n-SUPER_1 160430000 160440000 SUPER_1~160430000 3\n-SUPER_1 160770000 160780000 SUPER_1~160770000 2\n-SUPER_1 160810000 160820000 SUPER_1~160810000 2\n-SUPER_1 163330000 163350000 SUPER_1~163330000 2\n-SUPER_1 167310000 167330000 SUPER_1~167310000 2\n-SUPER_1 167930000 167950000 SUPER_1~167930000 2\n-SUPER_1 168170000 168170000 SUPER_1~168170000 3\n-SUPER_1 168400000 168420000 SUPER_1~168400000 2\n-SUPER_1 168440000 168490000 SUPER_1~168440000 2\n-SUPER_1 169780000 169790000 SUPER_1~169780000 2\n-SUPER_1 170210000 170240000 SUPER_1~170210000 2\n-SUPER_1 170260000 170280000 SUPER_1~170260000 2\n-SUPER_1 170320000 170330000 SUPER_1~170320000 2\n-SUPER_1 170450000 170470000 SUPER_1~170450000 3\n-SUPER_1 170580000 170600000 SUPER_1~170580000 2\n-SUPER_1 170670000 170670000 SUPER_1~170670000 3\n-SUPER_1 171410000 171420000 SUPER_1~171410000 2\n-SUPER_1 171450000 171460000 SUPER_1~171450000 2\n-SUPER_1 171470000 171480000 SUPER_1~171470000 2\n-SUPER_1 171490000 171500000 SUPER_1~171490000 5\n-SUPER_1 171770000 171780000 SUPER_1~171770000 2\n-SUPER_1 171860000 171870000 SUPER_1~171860000 2\n-SUPER_1 173040000 173050000 SUPER_1~173040000 2\n-SUPER_1 180600000 180610000 SUPER_1~180600000 4\n-SUPER_1 180880000 180880000 SUPER_1~180880000 3\n-SUPER_1 209520000 209530000 SUPER_1~209520000 3\n-SUPER_1 210120000 210130000 SUPER_1~210120000 2\n-SUPER_1 210620000 210630000 SUPER_1~210620000 3\n-SUPER_1 229580000 229590000 SUPER_1~229580000 3\n-SUPER_1 246120000 246130000 SUPER_1~246120000 2\n-SUPER_2 27960000 27970000 SUPER_2~27960000 8\n-SUPER_2 33100000 33120000 SUPER_2~33100000 2\n-SUPER_2 35480000 36050000 SUPER_2~35480000 2\n-SUPER_2 35490000 35510000 SUPER_2~35490000 2\n-SUPER_2 45800000 45820000 SUPER_2~45800000 2\n-SUPER_2 46280000 46290000 SUPER_2~46280000 9\n-SUPER_2 53560000 53570000 SUPER_2~53560000 8\n-SUPER_2 57350000 57360000 SUPER_2~57350000 8\n-SUPER_2 78720000 78720000 SUPER_2~78720000 3\n-SUPER_2 85460000 85460000 SUPER_2~85460000 3\n-SUPER_2 85490000 85490000 SUPER_2~85490000 3\n-SUPER_2 85600000 85600000 SUPER_2~85600000 3\n-SUPER_2 86420000 86420000 SUPER_2~86420000 3\n-SUPER_2 86440000 86440000 SUPER_2~86440000 3\n-SUPER_2 95170000 95180000 SUPER_2~95170000 3\n-SUPER_2 117270000 117280000 SUPER_2~117270000 2\n-SUPER_2 121570000 121580000 SUPER_2~121570000 2\n-SUPER_2 132510000 132520000 SUPER_2~132510000 2\n-SUPER_2 143490000 143500000 SUPER_2~143490000 2\n-SUPER_2 143670000 143680000 SUPER_2~143670000 10\n-SUPER_2 1544'..b'Scaffold_4303 18965 28965 Scaffold_4303~18965 2\n-Scaffold_4313 0 28765 Scaffold_4313~0 2\n-Scaffold_4320 0 10000 Scaffold_4320~0 12\n-Scaffold_4325 0 10000 Scaffold_4325~0 3\n-Scaffold_4337 10000 20000 Scaffold_4337~10000 2\n-Scaffold_4338 18143 28143 Scaffold_4338~18143 2\n-Scaffold_4339 0 10000 Scaffold_4339~0 4\n-Scaffold_4339 18125 28125 Scaffold_4339~18125 2\n-Scaffold_4347 0 0 Scaffold_4347~0 3\n-Scaffold_4352 0 10000 Scaffold_4352~0 2\n-Scaffold_4353 10000 20000 Scaffold_4353~10000 3\n-Scaffold_4354 0 20000 Scaffold_4354~0 5\n-Scaffold_4354 10000 27680 Scaffold_4354~10000 3\n-Scaffold_1885 0 10000 Scaffold_1885~0 5\n-Scaffold_1885 17678 27678 Scaffold_1885~17678 4\n-Scaffold_4363 0 27527 Scaffold_4363~0 3\n-Scaffold_4363 10000 27527 Scaffold_4363~10000 2\n-Scaffold_4364 0 10000 Scaffold_4364~0 6\n-Scaffold_4369 10000 20000 Scaffold_4369~10000 4\n-Scaffold_4370 0 10000 Scaffold_4370~0 4\n-Scaffold_4377 17025 27025 Scaffold_4377~17025 3\n-Scaffold_4381 0 20000 Scaffold_4381~0 3\n-Scaffold_4383 10000 20000 Scaffold_4383~10000 2\n-Scaffold_1893 16557 26557 Scaffold_1893~16557 3\n-Scaffold_4392 0 10000 Scaffold_4392~0 2\n-Scaffold_4394 0 10000 Scaffold_4394~0 2\n-Scaffold_4398 16315 26315 Scaffold_4398~16315 6\n-Scaffold_4401 0 10000 Scaffold_4401~0 2\n-Scaffold_4402 0 0 Scaffold_4402~0 3\n-Scaffold_1897 0 10000 Scaffold_1897~0 2\n-Scaffold_1897 15997 25997 Scaffold_1897~15997 3\n-Scaffold_4409 15953 25953 Scaffold_4409~15953 2\n-Scaffold_4410 0 10000 Scaffold_4410~0 3\n-Scaffold_1900 10000 20000 Scaffold_1900~10000 2\n-Scaffold_4423 15334 25334 Scaffold_4423~15334 2\n-Scaffold_4430 14940 24940 Scaffold_4430~14940 3\n-Scaffold_4439 10000 20000 Scaffold_4439~10000 2\n-Scaffold_4440 0 10000 Scaffold_4440~0 15\n-Scaffold_4440 10000 20000 Scaffold_4440~10000 2\n-Scaffold_4449 10000 20000 Scaffold_4449~10000 2\n-Scaffold_4451 13691 23691 Scaffold_4451~13691 2\n-Scaffold_4456 10000 23421 Scaffold_4456~10000 4\n-Scaffold_4458 10000 20000 Scaffold_4458~10000 3\n-Scaffold_4458 13383 23383 Scaffold_4458~13383 4\n-Scaffold_4459 0 10000 Scaffold_4459~0 2\n-Scaffold_4459 13381 23381 Scaffold_4459~13381 2\n-Scaffold_4460 10000 20000 Scaffold_4460~10000 3\n-Scaffold_1910 0 0 Scaffold_1910~0 3\n-Scaffold_4465 10000 20000 Scaffold_4465~10000 2\n-Scaffold_4468 10000 20000 Scaffold_4468~10000 3\n-Scaffold_4470 10000 20000 Scaffold_4470~10000 3\n-Scaffold_4470 12694 22694 Scaffold_4470~12694 4\n-Scaffold_4471 0 10000 Scaffold_4471~0 7\n-Scaffold_4474 0 10000 Scaffold_4474~0 3\n-Scaffold_4475 10000 20000 Scaffold_4475~10000 5\n-Scaffold_4485 0 21311 Scaffold_4485~0 5\n-Scaffold_4485 10000 20000 Scaffold_4485~10000 4\n-Scaffold_4485 11311 21311 Scaffold_4485~11311 2\n-Scaffold_4486 0 10000 Scaffold_4486~0 3\n-Scaffold_4489 0 10000 Scaffold_4489~0 2\n-Scaffold_4508 8891 18891 Scaffold_4508~8891 2\n-Scaffold_4512 0 10000 Scaffold_4512~0 2\n-Scaffold_4516 0 10000 Scaffold_4516~0 4\n-Scaffold_4516 5810 15810 Scaffold_4516~5810 3\n-Scaffold_4518 0 10000 Scaffold_4518~0 7\n-Scaffold_4518 1960 11960 Scaffold_4518~1960 7\n-Scaffold_1918 0 10000 Scaffold_1918~0 3\n-Scaffold_1918 1724 11724 Scaffold_1918~1724 4\n-Scaffold_4520 0 10000 Scaffold_4520~0 2\n-Scaffold_4520 397 10397 Scaffold_4520~397 2\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 test1k.bed
--- a/test1k.bed Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,24124 +0,0 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diff -r 69c6ea16c148 -r 1efcc387bef4 x/Merlin.fa.gz

Binary file x/Merlin.fa.gz has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/Merlin.fa.gz.fai
--- a/x/Merlin.fa.gz.fai Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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

diff -r 69c6ea16c148 -r 1efcc387bef4 x/Merlin.fa.gz.gzi

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

diff -r 69c6ea16c148 -r 1efcc387bef4 x/Ppersica1.fa.fa.gz

Binary file x/Ppersica1.fa.fa.gz has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/Ppersica1.fa.fa.gz.fai
--- a/x/Ppersica1.fa.fa.gz.fai Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,1 +0,0 @@
-Pp01 47851208 6 80 81

diff -r 69c6ea16c148 -r 1efcc387bef4 x/Ppersica1.fa.fa.gz.gzi

Binary file x/Ppersica1.fa.fa.gz.gzi has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/Vvinifera1.fa.fa.gz

Binary file x/Vvinifera1.fa.fa.gz has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/Vvinifera1.fa.fa.gz.fai
--- a/x/Vvinifera1.fa.fa.gz.fai Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,1 +0,0 @@
-chr1 23037639 6 60 61

diff -r 69c6ea16c148 -r 1efcc387bef4 x/Vvinifera1.fa.fa.gz.gzi

Binary file x/Vvinifera1.fa.fa.gz.gzi has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/arabgrapepeach.paf_11
--- a/x/arabgrapepeach.paf_11 Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,129777 +0,0 @@\n-Pp01\t47851208\t35000\t36000\t-\tchrUn\t43154196\t26047489\t26048489\t2\t1000\t8\tid:f:0.831914\tkc:f:0.902879\n-Pp01\t47851208\t38000\t39000\t+\tchr5\t25021643\t13537\t14537\t2\t1000\t8\tid:f:0.831914\tkc:f:0.93693\n-Pp01\t47851208\t39000\t40000\t+\tchr17\t17126926\t909039\t910039\t2\t1000\t8\tid:f:0.831914\tkc:f:1.02305\n-Pp01\t47851208\t45000\t46000\t-\tchr8\t22385789\t8160875\t8161875\t3\t1000\t8\tid:f:0.849858\tkc:f:0.913698\n-Pp01\t47851208\t49000\t50000\t-\tchr8\t22385789\t8155127\t8156127\t3\t1000\t8\tid:f:0.84952\tkc:f:0.957541\n-Pp01\t47851208\t50000\t51000\t-\tchr4\t23867706\t20888907\t20889907\t2\t1000\t8\tid:f:0.831914\tkc:f:0.976315\n-Pp01\t47851208\t51000\t52000\t-\tchrUn\t43154196\t5300440\t5301440\t2\t1000\t8\tid:f:0.831914\tkc:f:0.940799\n-Pp01\t47851208\t52000\t53000\t+\tchr17\t17126926\t9200962\t9201962\t1\t1000\t7\tid:f:0.803743\tkc:f:0.94545\n-Pp01\t47851208\t57000\t58000\t-\tchr9\t23006712\t19917499\t19918499\t2\t1000\t8\tid:f:0.831914\tkc:f:0.936352\n-Pp01\t47851208\t61000\t62000\t+\tchr7_random\t1447032\t361032\t362032\t2\t1000\t8\tid:f:0.832921\tkc:f:1.05875\n-Pp01\t47851208\t63000\t64000\t-\tchr6\t21508407\t19577351\t19578351\t2\t1000\t8\tid:f:0.831914\tkc:f:1.11331\n-Pp01\t47851208\t65000\t66000\t+\tchr17\t17126926\t15161009\t15162009\t2\t1000\t8\tid:f:0.832247\tkc:f:0.975446\n-Pp01\t47851208\t68000\t69000\t-\tchr8\t22385789\t13787780\t13788780\t2\t1000\t8\tid:f:0.831914\tkc:f:0.922845\n-Pp01\t47851208\t70000\t71000\t-\tchr10\t18140952\t976100\t977100\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t-\tchr11\t19818926\t37304\t38304\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t+\tchr12_random\t1566225\t1092287\t1093287\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t+\tchr13\t24396255\t918733\t919733\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t-\tchr13_random\t3268264\t493723\t494723\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t+\tchr14\t30274277\t14893114\t14894114\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t-\tchr15\t20304914\t5219516\t5220516\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t+\tchr18\t29360087\t6814496\t6815496\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t-\tchr18_random\t5170003\t2374998\t2375998\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t+\tchr2\t18779844\t13142265\t13143265\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t+\tchr4\t23867706\t4401454\t4402454\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t+\tchr5\t25021643\t9615855\t9616855\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t-\tchr6\t21508407\t6605517\t6606517\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t-\tchr7\t21026613\t13058043\t13059043\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t-\tchr8\t22385789\t3728038\t3729038\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t+\tchr9\t23006712\t52405\t53405\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t70000\t71000\t-\tchrUn\t43154196\t13784146\t13785146\t1\t1000\t7\tid:f:0.803082\tkc:f:1.04989\n-Pp01\t47851208\t72000\t73000\t-\tchr9\t23006712\t13783681\t13784681\t2\t1000\t8\tid:f:0.831914\tkc:f:1.02185\n-Pp01\t47851208\t73000\t74000\t-\tchr9\t23006712\t13774329\t13775329\t2\t1000\t8\tid:f:0.831914\tkc:f:0.827802\n-Pp01\t47851208\t80000\t81000\t-\tchr9\t23006712\t13696163\t13697163\t2\t1000\t8\tid:f:0.831914\tkc:f:0.941547\n-Pp01\t47851208\t81000\t82000\t+\tENA|CP002687|CP002687.1\t18585056\t14039503\t14040503\t2\t1000\t8\tid:f:0.831914\tkc:f:1.09962\n-Pp01\t47851208\t96000\t97000\t-\tchr13\t24396255\t2677686\t2678686\t2\t1000\t8\tid:f:0.831914\tkc:f:1.05334\n-Pp01\t47851208\t97000\t98000\t-\tchr18\t29360087\t6935515\t6936515\t2\t1000\t8\tid:f:0.831914\tkc:f:0.970351\n-Pp01\t47851208\t99000\t100000\t-\tchr13\t24396255\t7211769\t7212769\t2\t1000\t8\tid:f:0.831914\tkc:f:1.0044\n-Pp01\t47851208\t111000\t112000\t-\tchr14\t30274277\t18152296\t18153296\t1\t1000\t7\tid:f:0.803411\tkc:f:0.878718\n-Pp01\t47851208\t111000\t112000\t+\tchr16\t22053297\t19812596\t19813596\t1\t1000\t7\tid:f:0.803411\tkc:f:0.878718\n-Pp01\t47851208\t111000\t112000\t-\tchrUn\t43154196\t21909280\t21910280\t1\t1000\t7\tid:f:0.803411\tkc:f:0.878718\n-Pp01\t47851208\t115000\t116000\t-\tENA|CP002684|CP002684.1\t30427671\t13495595\t13496595\t2'..b'3154196\t1391485\t1392485\t1\t1000\t7\tid:f:0.803082\tkc:f:0.948159\n-scaffold_191\t4575\t3575\t4575\t+\tENA|CP002684|CP002684.1\t30427671\t11730328\t11731328\t1\t1000\t7\tid:f:0.803082\tkc:f:0.948159\n-scaffold_191\t4575\t3575\t4575\t-\tENA|CP002685|CP002685.1\t19698289\t7583468\t7584468\t1\t1000\t7\tid:f:0.803082\tkc:f:0.948159\n-scaffold_191\t4575\t3575\t4575\t+\tENA|CP002686|CP002686.1\t23459830\t511225\t512225\t1\t1000\t7\tid:f:0.803082\tkc:f:0.948159\n-scaffold_191\t4575\t3575\t4575\t-\tENA|CP002687|CP002687.1\t18585056\t5706977\t5707977\t1\t1000\t7\tid:f:0.803082\tkc:f:0.948159\n-scaffold_191\t4575\t3575\t4575\t+\tENA|CP002688|CP002688.1\t26975502\t6027002\t6028002\t1\t1000\t7\tid:f:0.803082\tkc:f:0.948159\n-scaffold_247\t4525\t3000\t4000\t+\tchr18_random\t5170003\t4724786\t4725786\t2\t1000\t8\tid:f:0.831914\tkc:f:0.918526\n-scaffold_247\t4525\t3525\t4525\t+\tchr18_random\t5170003\t4724786\t4725786\t2\t1000\t8\tid:f:0.831914\tkc:f:0.841707\n-scaffold_220\t4478\t0\t1000\t-\tchr13\t24396255\t14240906\t14241906\t2\t1000\t8\tid:f:0.831914\tkc:f:0.691279\n-scaffold_220\t4478\t1000\t2000\t+\tchr17\t17126926\t15135135\t15136135\t2\t1000\t8\tid:f:0.831914\tkc:f:0.845202\n-scaffold_220\t4478\t2000\t3000\t+\tchr17\t17126926\t15135135\t15136135\t2\t1000\t8\tid:f:0.831914\tkc:f:0.592864\n-scaffold_220\t4478\t3000\t4000\t+\tchr17\t17126926\t15135135\t15136135\t2\t1000\t8\tid:f:0.831914\tkc:f:0.885933\n-scaffold_220\t4478\t3478\t4478\t+\tchr17\t17126926\t15135135\t15136135\t2\t1000\t8\tid:f:0.831914\tkc:f:0.851145\n-scaffold_231\t4391\t0\t1000\t+\tchr15\t20304914\t1778930\t1779930\t2\t1000\t8\tid:f:0.831914\tkc:f:0.984577\n-scaffold_231\t4391\t2000\t3000\t-\tchrUn\t43154196\t6514075\t6515075\t2\t1000\t8\tid:f:0.832247\tkc:f:0.530935\n-scaffold_231\t4391\t3391\t4391\t+\tchr15\t20304914\t1778930\t1779930\t2\t1000\t8\tid:f:0.831914\tkc:f:1.1372\n-scaffold_259\t3708\t0\t1000\t-\tchr17\t17126926\t1371257\t1372257\t1\t1000\t7\tid:f:0.804415\tkc:f:0.84608\n-scaffold_259\t3708\t2000\t3000\t-\tENA|CP002685|CP002685.1\t19698289\t558514\t559514\t2\t1000\t8\tid:f:0.831914\tkc:f:0.7915\n-scaffold_254\t3576\t0\t1000\t-\tchr18_random\t5170003\t4101235\t4102235\t2\t1000\t8\tid:f:0.831914\tkc:f:0.938495\n-scaffold_254\t3576\t1000\t2000\t-\tchr18_random\t5170003\t4101350\t4102350\t2\t1000\t8\tid:f:0.831914\tkc:f:0.784942\n-scaffold_254\t3576\t1000\t2000\t+\tchrUn\t43154196\t37819369\t37820369\t2\t1000\t8\tid:f:0.831914\tkc:f:0.784942\n-scaffold_254\t3576\t2576\t3576\t-\tchr18_random\t5170003\t4101359\t4102359\t2\t1000\t8\tid:f:0.831914\tkc:f:0.855605\n-scaffold_255\t3476\t0\t1000\t-\tchr18\t29360087\t22938806\t22939806\t2\t1000\t8\tid:f:0.833262\tkc:f:0.879877\n-scaffold_270\t3362\t0\t1000\t-\tchrUn\t43154196\t28843065\t28844065\t2\t1000\t8\tid:f:0.831914\tkc:f:1.08283\n-scaffold_270\t3362\t1000\t2000\t-\tchr18\t29360087\t11597680\t11598680\t2\t1000\t8\tid:f:0.831914\tkc:f:0.901259\n-scaffold_270\t3362\t2000\t3000\t+\tchr11\t19818926\t12454100\t12455100\t2\t1000\t8\tid:f:0.831914\tkc:f:0.831158\n-scaffold_270\t3362\t2362\t3362\t+\tchr11\t19818926\t12454100\t12455100\t2\t1000\t8\tid:f:0.831914\tkc:f:0.788287\n-scaffold_308\t2380\t0\t1000\t+\tchrUn\t43154196\t26022131\t26023131\t2\t1000\t8\tid:f:0.833262\tkc:f:0.814096\n-scaffold_308\t2380\t1000\t2000\t+\tchr6\t21508407\t7794186\t7795186\t2\t1000\t8\tid:f:0.833262\tkc:f:0.769516\n-scaffold_308\t2380\t1380\t2380\t+\tchr6\t21508407\t7794186\t7795186\t2\t1000\t8\tid:f:0.833262\tkc:f:0.850835\n-scaffold_333\t1452\t0\t1000\t+\tchr1\t23037639\t8089320\t8090320\t2\t1000\t8\tid:f:0.832247\tkc:f:1.0009\n-scaffold_333\t1452\t0\t1000\t+\tchr6\t21508407\t7794067\t7795067\t2\t1000\t8\tid:f:0.832247\tkc:f:1.0009\n-scaffold_333\t1452\t452\t1452\t+\tchr6\t21508407\t7794067\t7795067\t2\t1000\t8\tid:f:0.832582\tkc:f:0.850166\n-scaffold_338\t1306\t0\t1000\t+\tENA|CP002688|CP002688.1\t26975502\t1913479\t1914479\t3\t1000\t8\tid:f:0.84952\tkc:f:0.919077\n-scaffold_338\t1306\t306\t1306\t+\tENA|CP002688|CP002688.1\t26975502\t1913479\t1914479\t3\t1000\t8\tid:f:0.84952\tkc:f:0.917352\n-scaffold_344\t1163\t0\t1000\t+\tchr9\t23006712\t14055684\t14056684\t2\t1000\t8\tid:f:0.831914\tkc:f:1.08801\n-scaffold_344\t1163\t163\t1163\t+\tchr9\t23006712\t14055553\t14056553\t3\t1000\t8\tid:f:0.850198\tkc:f:1.04507\n-scaffold_349\t1099\t0\t1000\t-\tENA|CP002687|CP002687.1\t18585056\t11626986\t11627986\t2\t1000\t8\tid:f:0.831914\tkc:f:1.05856\n-scaffold_349\t1099\t99\t1099\t-\tENA|CP002687|CP002687.1\t18585056\t11626986\t11627986\t2\t1000\t8\tid:f:0.831914\tkc:f:1.06329\n'

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/arabgrapepeach.paf_12
--- a/x/arabgrapepeach.paf_12 Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/bedscoreplugin.js
--- a/x/bedscoreplugin.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,26 +0,0 @@
-// 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 69c6ea16c148 -r 1efcc387bef4 x/build_env_setup.sh
--- a/x/build_env_setup.sh Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,396 +0,0 @@\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 69c6ea16c148 -r 1efcc387bef4 x/conda_build.sh
--- a/x/conda_build.sh Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,20 +0,0 @@
-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 69c6ea16c148 -r 1efcc387bef4 x/config.json
--- a/x/config.json Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1007 +0,0 @@\n-{\n- "plugins": [\n- {\n- "name": "BedScorePlugin",\n- "umdLoc": {\n- "uri": "bedscoreplugin.js"\n- }\n- },\n- {\n- "name": "MafViewer",\n- "url": "https://unpkg.com/jbrowse-plugin-mafviewer/dist/jbrowse-plugin-mafviewer.umd.production.min.js"\n- }\n- ],\n- "configuration": {\n- "disableAnalytics": false,\n- "theme": {\n- "palette": {\n- "primary": {\n- "main": "#0d233f"\n- },\n- "secondary": {\n- "main": "#721e63"\n- },\n- "tertiary": {\n- "main": "#135560"\n- },\n- "quaternary": {\n- "main": "#ffb11d"\n- }\n- },\n- "typography": {\n- "fontSize": 10\n- }\n- }\n- },\n- "defaultSession": {\n- "name": "New test session",\n- "views": [\n- {\n- "type": "LinearGenomeView",\n- "offsetPx": 0,\n- "bpPerPx": 50,\n- "minimized": false,\n- "tracks": [\n- {\n- "type": "FeatureTrack",\n- "configuration": "merlin.gff3_0",\n- "displays": [\n- {\n- "type": "LinearBasicDisplay",\n- "displayId": "merlin.gff3_0-LinearBasicDisplay",\n- "trackShowLabels": false,\n- "trackShowDescriptions": false,\n- "configuration": "merlin.gff3_0-LinearBasicDisplay"\n- }\n- ]\n- },\n- {\n- "type": "QuantitativeTrack",\n- "configuration": "merlin.bw_1",\n- "displays": [\n- {\n- "type": "LinearWiggleDisplay",\n- "displayId": "merlin.bw_1-LinearWiggleDisplay",\n- "color": "#135560",\n- "autoscale": "globalsd",\n- "resolution": 1,\n- "summaryScoreMode": "whiskers",\n- "filled": false,\n- "scaleType": "linear",\n- "displayCrossHatches": false,\n- "configuration": "merlin.bw_1-LinearWiggleDisplay"\n- }\n- ]\n- },\n- {\n- "type": "FeatureTrack",\n- "configuration": "test-6.bed_2",\n- "displays": [\n- {\n- "type": "LinearBasicDisplay",\n- "displayId": "test-6.bed_2-LinearBasicDisplay",\n- "trackShowLabels": false,\n- "trackShowDescriptions": false,\n- "configuration": "test-6.bed_2-LinearBasicDisplay"\n- }\n- ]\n- },\n- {\n- "type": "VariantTrack",\n- "configuration": "merlin.vcf_3",\n- "displays": [\n- {\n- "type": "LinearVariantDisplay",\n- "displayId": "merlin.vcf_3-LinearVariantDisplay",\n- "trackShowLabels": false,\n- "trackShowDescriptions": false,\n- "configuration": "merlin.vcf_3-LinearVariantDisplay"\n- }\n- ]\n- },\n- {\n- "type": "AlignmentsTrack",\n- "configuration": "merlin.cram_4",\n- "displays": [\n- {\n- "type": "LinearAlignmentsDisplay",\n- "displayId": "merlin.cram_4-LinearAlignmentsDisplay",\n- "configuration": "merlin.cram_4-LinearAlignmentsDisplay"\n- }\n- ]\n- },\n- {\n- "type": "AlignmentsTrack",\n- "configuration": "merlin-sample.bam_5",\n- "displays": [\n- {\n- "type": "LinearAlignmentsDisplay",\n- "displayId": "merlin-sample.bam_5-LinearAlignmentsDisplay",\n- "configuration": "merlin-sample.bam_5-LinearAlignmentsDisplay"\n- }\n- ]\n- },\n- {\n- "type": "MafTrack",\n- "configuration": "merlinlastz.maf_6",\n- "displays": [\n- {\n- "type": "LinearBasicDisplay",\n- "displayId": "'..b' "displays": [\n- {\n- "type": "LinearReferenceSequenceDisplay",\n- "displayId": "Ppersica1.fa-LinearReferenceSequenceDisplay"\n- },\n- {\n- "type": "LinearGCContentDisplay",\n- "displayId": "Ppersica1.fa-LinearGCContentDisplay"\n- }\n- ]\n- },\n- {\n- "name": "Vvinifera1.fa",\n- "sequence": {\n- "type": "ReferenceSequenceTrack",\n- "trackId": "Vvinifera1.fa",\n- "adapter": {\n- "type": "BgzipFastaAdapter",\n- "fastaLocation": {\n- "uri": "Vvinifera1.fa.fa.gz"\n- },\n- "faiLocation": {\n- "uri": "Vvinifera1.fa.fa.gz.fai"\n- },\n- "gziLocation": {\n- "uri": "Vvinifera1.fa.fa.gz.gzi"\n- }\n- }\n- },\n- "displays": [\n- {\n- "type": "LinearReferenceSequenceDisplay",\n- "displayId": "Vvinifera1.fa-LinearReferenceSequenceDisplay"\n- },\n- {\n- "type": "LinearGCContentDisplay",\n- "displayId": "Vvinifera1.fa-LinearGCContentDisplay"\n- }\n- ]\n- },\n- {\n- "name": "arabidopsis.URI",\n- "sequence": {\n- "type": "ReferenceSequenceTrack",\n- "trackId": "arabidopsis.URI",\n- "adapter": {\n- "type": "BgzipFastaAdapter",\n- "fastaLocation": {\n- "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/arabidopsis.fa.gz"\n- },\n- "faiLocation": {\n- "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/arabidopsis.fa.gz.fai"\n- },\n- "gziLocation": {\n- "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/arabidopsis.fa.gz.gzi"\n- }\n- }\n- },\n- "displays": [\n- {\n- "type": "LinearReferenceSequenceDisplay",\n- "displayId": "arabidopsis.URI-LinearReferenceSequenceDisplay"\n- },\n- {\n- "type": "LinearGCContentDisplay",\n- "displayId": "arabidopsis.URI-LinearGCContentDisplay"\n- }\n- ]\n- },\n- {\n- "name": "Vvinifera1.URI",\n- "sequence": {\n- "type": "ReferenceSequenceTrack",\n- "trackId": "Vvinifera1.URI",\n- "adapter": {\n- "type": "BgzipFastaAdapter",\n- "fastaLocation": {\n- "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/Vvinifera1.fa.gz"\n- },\n- "faiLocation": {\n- "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/Vvinifera1.fa.gz.fai"\n- },\n- "gziLocation": {\n- "uri": "https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/Vvinifera1.fa.gz.gzi"\n- }\n- }\n- },\n- "displays": [\n- {\n- "type": "LinearReferenceSequenceDisplay",\n- "displayId": "Vvinifera1.URI-LinearReferenceSequenceDisplay"\n- },\n- {\n- "type": "LinearGCContentDisplay",\n- "displayId": "Vvinifera1.URI-LinearGCContentDisplay"\n- }\n- ]\n- },\n- {\n- "name": "hg38",\n- "sequence": {\n- "type": "ReferenceSequenceTrack",\n- "trackId": "hg38",\n- "adapter": {\n- "type": "BgzipFastaAdapter",\n- "fastaLocation": {\n- "uri": "https://s3.amazonaws.com/jbrowse.org/genomes/GRCh38/fasta/GRCh38.fa.gz"\n- },\n- "faiLocation": {\n- "uri": "https://s3.amazonaws.com/jbrowse.org/genomes/GRCh38/fasta/GRCh38.fa.gz.fai"\n- },\n- "gziLocation": {\n- "uri": "https://s3.amazonaws.com/jbrowse.org/genomes/GRCh38/fasta/GRCh38.fa.gz.gzi"\n- }\n- }\n- },\n- "displays": [\n- {\n- "type": "LinearReferenceSequenceDisplay",\n- "displayId": "hg38-LinearReferenceSequenceDisplay"\n- },\n- {\n- "type": "LinearGCContentDisplay",\n- "displayId": "hg38-LinearGCContentDisplay"\n- }\n- ]\n- }\n- ]\n-}\n\\ No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/dm3.fa.fa.gz

Binary file x/dm3.fa.fa.gz has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/dm3.fa.fa.gz.fai
--- a/x/dm3.fa.fa.gz.fai Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,1 +0,0 @@
-NT_037436.4 28110227 51 70 71

diff -r 69c6ea16c148 -r 1efcc387bef4 x/dm3.fa.fa.gz.gzi

Binary file x/dm3.fa.fa.gz.gzi has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/dm3test.cool_9.hic

Binary file x/dm3test.cool_9.hic has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/galaxy.xml
--- a/x/galaxy.xml Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,628 +0,0 @@\n-<?xml version="1.0"?>\n-<root>\n- <metadata>\n- <general>\n- <defaultLocation></defaultLocation>\n- <zipOut>true</zipOut>\n- <bpPerPx>50</bpPerPx>\n- <analytics>false</analytics>\n- <primary_color>#0d233f</primary_color>\n- <secondary_color>#721e63</secondary_color>\n- <tertiary_color>#135560</tertiary_color>\n- <quaternary_color>#ffb11d</quaternary_color>\n- <font_size>10</font_size>\n- <session_name>New test session</session_name>\n- </general>\n- <galaxyUrl>http://localhost:8080</galaxyUrl>\n- </metadata>\n- <assembly>\n- <metadata>\n- <genomes>\n- <genome path="/tmp/tmpus622kw5/files/7/4/8/dataset_748d2461-ea0f-4e92-b129-e680b76d4c81.dat" label="Merlin" useuri="no">\n- <metadata>\n-\n- <dataset id="801225f8dc4ca2f7"\n- hid="1"\n- size="171.6 KB"\n- edam_format="format_1929"\n- file_ext="fasta"\n- dname = "Merlin"\n- />\n- <history\n- user_email="planemo@galaxyproject.org"\n- user_id="1"\n- display_name="Tool Test History for jbrowse2/2.15.4+galaxy2-0"/>\n- id="801225f8dc4ca2f7"\n- />\n- <metadata\n- dbkey="?"\n- data_lines="2881"\n- sequences="1"\n- />\n- <tool\n- tool_id="upload1"\n- tool_version="1.1.7"\n- />\n- </metadata>\n- </genome>\n- </genomes>\n- </metadata>\n- <tracks>\n- <track cat="Assembly properties" format="gff" visibility="default_on">\n- <files>\n- <trackFile path="/tmp/tmpus622kw5/files/b/7/d/dataset_b7de2a4d-8123-493d-99ad-6f251912ae1c.dat" ext="gff3" label="merlin.gff3" useuri="no">\n- <metadata>\n- <dataset id="f899122287bdd0b2" hid="2"\n- size="5.0 KB"\n- edam_format="format_1975"\n- file_ext="gff3" />\n- <history id="801225f8dc4ca2f7"\n- user_email="planemo@galaxyproject.org"\n- user_id="1"\n- display_name="Tool Test History for jbrowse2/2.15.4+galaxy2-0"/>\n- <metadata\n- dbkey="?"\n- data_lines="9"\n- comment_lines="10"\n- columns="9"\n- column_names="[]"\n- delimiter="__tc__"\n- attributes="23"\n- />\n- <tool\n- tool_id="upload1"\n- tool_version="1.1.7"\n- />\n- </metadata>\n- </trackFile>\n- </files>\n- <options>\n- <style>\n- <type>LinearBasicDisplay</type>\n- <trackShowLabels>false</trackShowLabels>\n- <trackShowDescriptions>false</trackShowDescriptions>\n- </style>\n- '..b' <genome>\n- https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/arabidopsis.fa.gz ~ arabidopsis.URI,\n- https://usegalaxy.eu/static/share/ebp/jbrowse2/test-data/Vvinifera1.fa.gz ~ Vvinifera1.URI,\n- </genome>\n- <useuri>\n- true\n- </useuri>\n- </paf>\n- </options>\n- </track>\n- <track cat="Assembly properties" format="paf" visibility="default_on">\n- <files>\n- <trackFile path="/tmp/tmpus622kw5/files/2/7/2/dataset_272188a9-0367-4677-9b28-ad5e84aceb99.dat" ext="paf" label="arabgrapepeach.paf" useuri="no">\n- <metadata>\n- <dataset id="edaefaa2c8238b09" hid="16"\n- size="12.8 MB"\n- edam_format="format_2330"\n- file_ext="paf" />\n- <history id="801225f8dc4ca2f7"\n- user_email="planemo@galaxyproject.org"\n- user_id="1"\n- display_name="Tool Test History for jbrowse2/2.15.4+galaxy2-0"/>\n- <metadata\n- dbkey="?"\n- data_lines="129777"\n- />\n- <tool\n- tool_id="upload1"\n- tool_version="1.1.7"\n- />\n- </metadata>\n- </trackFile>\n- </files>\n- <options>\n- <style>\n- </style>\n- <paf>\n- <genome>\n- /tmp/tmpus622kw5/files/e/4/4/dataset_e44ca09b-d9ff-4a99-a4cb-e50f24a66ff9.dat ~ Vvinifera1.fa,\n- </genome>\n- <useuri>\n- false\n- </useuri>\n- </paf>\n- </options>\n- </track>\n- </tracks>\n- </assembly>\n- <assembly>\n- <metadata>\n- <genomes>\n- <genome path="https://s3.amazonaws.com/jbrowse.org/genomes/GRCh38/fasta/GRCh38.fa.gz" label="hg38" useuri="yes">\n- <metadata>\n- <dataset\n- dname = "hg38" />\n- </metadata>\n- </genome>\n- </genomes>\n- </metadata>\n- <tracks>\n- <track cat="Assembly properties" format="hic" visibility="default_on">\n- <files>\n- <trackFile path="https://s3.amazonaws.com/igv.broadinstitute.org/data/hic/intra_nofrag_30.hic" ext="hic"\n- label="humanhic" useuri="yes">\n- <metadata>\n- <dataset id = "https://s3.amazonaws.com/igv.broadinstitute.org/data/hic/intra_nofrag_30.hic" />\n- </metadata>\n- </trackFile>\n- </files>\n- <options>\n- <style>\n- <type>LinearHicDisplay</type>\n- </style>\n- <hic>\n- </hic>\n- </options>\n- </track>\n- </tracks>\n- </assembly>\n-</root>\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/index.html
--- a/x/index.html Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,1 +0,0 @@
-<!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 69c6ea16c148 -r 1efcc387bef4 x/jb2_webserver.py
--- a/x/jb2_webserver.py Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,187 +0,0 @@
-#!/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 69c6ea16c148 -r 1efcc387bef4 x/manifest.json
--- a/x/manifest.json Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,15 +0,0 @@
-{
-  "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 69c6ea16c148 -r 1efcc387bef4 x/merlin-sample.bam_5

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlin-sample.bam_5.bai

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlin.blastxml_7.gz

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlin.blastxml_7.gz.tbi

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlin.bw_1

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlin.cram_4

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlin.cram_4.crai

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlin.gff3_0.gz

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlin.gff3_0.gz.tbi

Binary file x/merlin.gff3_0.gz.tbi has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlin.vcf_3

Binary file x/merlin.vcf_3 has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlin.vcf_3.tbi

Binary file x/merlin.vcf_3.tbi has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlinlastz.maf_6.sorted.bed
--- a/x/merlinlastz.maf_6.sorted.bed Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-Merlin 1320 1380 Merlin_1 5595 Merlin.Merlin:1320:60:+:172788:ATGTAAGCTCAGGAGCTCCACACGCAACAGGAACACAACCTGTGAACATTATCACAGTAT,Merlin1.Merlin:0:60:+:60:ATGTAAGCTCAGGAGCTCCACACGCAACAGGAACACAACCTGTGAACATTATCACAGTAT
-Merlin 4020 4080 Merlin_2 5667 Merlin.Merlin:4020:60:+:172788:ATGAATTTATCAGTCCAATACTTAAAATGAATACGAAGTAAATCTATGCCTAATACTAAT,Merlin2.Merlin:0:60:+:60:ATGAATTTATCAGTCCAATACTTAAAATGAATACGAAGTAAATCTATGCCTAATACTAAT
-Merlin 5220 5280 Merlin_3 5640 Merlin.Merlin:5220:60:+:172788:TAATCAACGTGTGATGCTTCAAGCCAAGCTTAGGAATAGAAATGGTTTTGCCATTGACTT,Merlin3.Merlin:0:60:+:60:TAATCAACGTGTGATGCTTCAAGCCAAGCTTAGGAATAGAAATGGTTTTGCCATTGACTT
-Merlin 7740 7800 Merlin_4 5649 Merlin.Merlin:7740:60:+:172788:AAAAGCTTATTGCTTAAGCCTACAGTTAAACTCGCTATTCCAGTTAAATGCGATAAATGT,Merlin4.Merlin:0:60:+:60:AAAAGCTTATTGCTTAAGCCTACAGTTAAACTCGCTATTCCAGTTAAATGCGATAAATGT
-Merlin 9720 9780 Merlin_5 5658 Merlin.Merlin:9720:60:+:172788:TTTTCTTTGCTAATTTAACACCAAGAGCTGCAATCCATTGGTTTCTTCGTTTATATCCTG,Merlin5.Merlin:0:60:+:60:TTTTCTTTGCTAATTTAACACCAAGAGCTGCAATCCATTGGTTTCTTCGTTTATATCCTG
-Merlin 10380 10440 Merlin_6 5658 Merlin.Merlin:10380:60:+:172788:ATACTGCATCCTTTTGATACCAATGCGGTTCAATTTGAGTGTTACCAGAGTATATCTTGA,Merlin6.Merlin:0:60:+:60:ATACTGCATCCTTTTGATACCAATGCGGTTCAATTTGAGTGTTACCAGAGTATATCTTGA

diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlinlastz.maf_6.sorted.bed.gz

Binary file x/merlinlastz.maf_6.sorted.bed.gz has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/merlinlastz.maf_6.sorted.bed.gz.tbi

Binary file x/merlinlastz.maf_6.sorted.bed.gz.tbi has changed

diff -r 69c6ea16c148 -r 1efcc387bef4 x/metadata_conda_debug.yaml
--- a/x/metadata_conda_debug.yaml Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,33 +0,0 @@
-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 69c6ea16c148 -r 1efcc387bef4 x/peach-grape-map.paf_10
--- a/x/peach-grape-map.paf_10 Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,9291 +0,0 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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/css/3120.6d3f3959.chunk.css.map
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--- a/x/static/js/1051.8e1641e2.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1157.c0d4652e.chunk.js
--- a/x/static/js/1157.c0d4652e.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1157.c0d4652e.chunk.js.map
--- a/x/static/js/1157.c0d4652e.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/1189.f18c6e1f.chunk.js
--- a/x/static/js/1189.f18c6e1f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1189.f18c6e1f.chunk.js.map
--- a/x/static/js/1189.f18c6e1f.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/12.c0c7bdf9.chunk.js
--- a/x/static/js/12.c0c7bdf9.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/12.c0c7bdf9.chunk.js.map
--- a/x/static/js/12.c0c7bdf9.chunk.js.map Sat Oct 12 23:11:22 2024 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/120.a447052d.chunk.js
--- a/x/static/js/120.a447052d.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1260.ee4ecbf4.chunk.js
--- a/x/static/js/1260.ee4ecbf4.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1260.ee4ecbf4.chunk.js.map
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--- a/x/static/js/1266.cd6d9354.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1266.cd6d9354.chunk.js.map
--- a/x/static/js/1266.cd6d9354.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1281.1d836fc4.chunk.js
--- a/x/static/js/1281.1d836fc4.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1281.1d836fc4.chunk.js.map
--- a/x/static/js/1281.1d836fc4.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/1304.a512b560.chunk.js
--- a/x/static/js/1304.a512b560.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1304.a512b560.chunk.js.map
--- a/x/static/js/1304.a512b560.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1310.8a044016.chunk.js
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1326.19289940.chunk.js
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1326.19289940.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1345.aaaaf175.chunk.js
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1345.aaaaf175.chunk.js.map
--- a/x/static/js/1345.aaaaf175.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1354.ded982ce.chunk.js
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/14.b9913d1d.chunk.js
--- a/x/static/js/14.b9913d1d.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/14.b9913d1d.chunk.js.map
--- a/x/static/js/14.b9913d1d.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/1503.cc48d25a.chunk.js
--- a/x/static/js/1503.cc48d25a.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2 +0,0 @@\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 69c6ea16c148 -r 1efcc387bef4 x/static/js/1503.cc48d25a.chunk.js.map
--- a/x/static/js/1503.cc48d25a.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1516.ca4ab8f0.chunk.js
--- a/x/static/js/1516.ca4ab8f0.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1516.ca4ab8f0.chunk.js.map
--- a/x/static/js/1516.ca4ab8f0.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1537.4fdb4e95.chunk.js
--- a/x/static/js/1537.4fdb4e95.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1537.4fdb4e95.chunk.js.map
--- a/x/static/js/1537.4fdb4e95.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1598.3b48685f.chunk.js
--- a/x/static/js/1598.3b48685f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1598.3b48685f.chunk.js.map
--- a/x/static/js/1598.3b48685f.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/1637.21a8cf01.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1725.795fc4d3.chunk.js
--- a/x/static/js/1725.795fc4d3.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1752.a727a500.chunk.js
--- a/x/static/js/1752.a727a500.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1752.a727a500.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1757.a6d05bc3.chunk.js
--- a/x/static/js/1757.a6d05bc3.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1811.7cfd8419.chunk.js
--- a/x/static/js/1811.7cfd8419.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1811.7cfd8419.chunk.js.map
--- a/x/static/js/1811.7cfd8419.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1822.2cbe112a.chunk.js
--- a/x/static/js/1822.2cbe112a.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1822.2cbe112a.chunk.js.map
--- a/x/static/js/1822.2cbe112a.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/1824.c2ed4bca.chunk.js
--- a/x/static/js/1824.c2ed4bca.chunk.js Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/1996.a37d9ec7.chunk.js Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/1999.2554e815.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2018.9ce7fb06.chunk.js
--- a/x/static/js/2018.9ce7fb06.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2018.9ce7fb06.chunk.js.map
--- a/x/static/js/2018.9ce7fb06.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/2047.b1e80504.chunk.js
--- a/x/static/js/2047.b1e80504.chunk.js Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/2189.3c65daf8.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/2197.a5134ce4.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2241.3d359b22.chunk.js.map
--- a/x/static/js/2241.3d359b22.chunk.js.map Sat Oct 12 23:11:22 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: \\"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 69c6ea16c148 -r 1efcc387bef4 x/static/js/2249.b91f0bb3.chunk.js
--- a/x/static/js/2249.b91f0bb3.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2249.b91f0bb3.chunk.js.map
--- a/x/static/js/2249.b91f0bb3.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2306.f8d640f4.chunk.js
--- a/x/static/js/2306.f8d640f4.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2306.f8d640f4.chunk.js.map
--- a/x/static/js/2306.f8d640f4.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2321.ef211da9.chunk.js
--- a/x/static/js/2321.ef211da9.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2424.7cd6703f.chunk.js
--- a/x/static/js/2424.7cd6703f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2424.7cd6703f.chunk.js.map
--- a/x/static/js/2424.7cd6703f.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/246.9848bd41.chunk.js
--- a/x/static/js/246.9848bd41.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /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 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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2493.20e8e76c.chunk.js
--- a/x/static/js/2493.20e8e76c.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2583.db78b17f.chunk.js
--- a/x/static/js/2583.db78b17f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/26.604133d9.chunk.js
--- a/x/static/js/26.604133d9.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2627.300bea43.chunk.js
--- a/x/static/js/2627.300bea43.chunk.js Sat Oct 12 23:11:22 2024 +0000
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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 69c6ea16c148 -r 1efcc387bef4 x/static/js/2645.4b79a04c.chunk.js
--- a/x/static/js/2645.4b79a04c.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2645.4b79a04c.chunk.js.map
--- a/x/static/js/2645.4b79a04c.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/266.94eb2bf9.chunk.js
--- a/x/static/js/266.94eb2bf9.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /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\\" ? 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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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--- a/x/static/js/2847.009c96ee.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2847.009c96ee.chunk.js.LICENSE.txt
--- a/x/static/js/2847.009c96ee.chunk.js.LICENSE.txt Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/2847.009c96ee.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2861.aa6cd5b7.chunk.js
--- a/x/static/js/2861.aa6cd5b7.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2872.5129bbd8.chunk.js
--- a/x/static/js/2872.5129bbd8.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2872.5129bbd8.chunk.js.map
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PropTypes.string,\\n /**\\n * Used to render icon or text elements inside the Avatar if `src` is not set.\\n * This can be an element, or just a string.\\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 * [Attributes](https://developer.mozilla.org/en-US/docs/Web/HTML/Element/img#attributes) applied to the `img` element if the component is used to display an image.\\n * It can be used to listen for the loading error event.\\n */\\n imgProps: PropTypes.object,\\n /**\\n * The `sizes` attribute for the `img` element.\\n */\\n sizes: PropTypes.string,\\n /**\\n * The props used for each slot inside.\\n * @default {}\\n */\\n slotProps: PropTypes.shape({\\n img: 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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2885.8a30e856.chunk.js
--- a/x/static/js/2885.8a30e856.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2885.8a30e856.chunk.js.map
--- a/x/static/js/2885.8a30e856.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 impact.\'].join(\'\\\\n\'));\\n }\\n return null;\\n }),\\n /**\\n * Removes all hover effects and pointer events.\\n * @default false\\n */\\n readOnly: PropTypes.bool,\\n /**\\n * The size of the component.\\n * @default \'medium\'\\n */\\n size: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'small\', \'medium\', \'large\']), 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 /**\\n * The rating value.\\n */\\n value: PropTypes.number\\n} : void 0;\\nexport default 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No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2928.4ac8c386.chunk.js
--- a/x/static/js/2928.4ac8c386.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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-"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[2928],{62928:(e,n,a)=>{a.r(n),a.d(n,{default:()=>u});var t=a(7552),l=a(29499),s=a(1343),c=a(29629),o=a(58507),r=a(5401),m=a(75785),h=a(49823);const i=(0,m.n9)()((()=>({container:{width:800}})));function u({handleClose:e,session:n}){const{classes:a}=i();return t.createElement(h.Dialog,{title:"Preferences",open:!0,onClose:e,maxWidth:"xl"},t.createElement(l.A,{className:a.container},t.createElement(s.A,{select:!0,label:"Theme",value:n.themeName,onChange:e=>{n.setThemeName(e.target.value)}},Object.entries(n.allThemes()).map((([e,n])=>t.createElement(c.A,{key:e,value:e},n.name||"(Unknown name)"))))),t.createElement(o.A,null,t.createElement(r.A,{onClick:e},"Close")))}}}]);
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2928.4ac8c386.chunk.js.map
--- a/x/static/js/2928.4ac8c386.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,1 +0,0 @@
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2968.4d90773a.chunk.js
--- a/x/static/js/2968.4d90773a.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2968.4d90773a.chunk.js.map
--- a/x/static/js/2968.4d90773a.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2977.aa562b03.chunk.js
--- a/x/static/js/2977.aa562b03.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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b'@@ -1,2 +0,0 @@\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 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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2977.aa562b03.chunk.js.map
--- a/x/static/js/2977.aa562b03.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/2989.031b43a0.chunk.js
--- a/x/static/js/2989.031b43a0.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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--- a/x/static/js/3003.0f0cbacd.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3109.3173f682.chunk.js
--- a/x/static/js/3109.3173f682.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3109.3173f682.chunk.js.map
--- a/x/static/js/3109.3173f682.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/311.2c004784.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/311.2c004784.chunk.js.map
--- a/x/static/js/311.2c004784.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3116.fa0100fd.chunk.js
--- a/x/static/js/3116.fa0100fd.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3116.fa0100fd.chunk.js.map
--- a/x/static/js/3116.fa0100fd.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3120.3940249f.chunk.js
--- a/x/static/js/3120.3940249f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3162.eb9bf76d.chunk.js.map
--- a/x/static/js/3162.eb9bf76d.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3167.312d0953.chunk.js
--- a/x/static/js/3167.312d0953.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3167.312d0953.chunk.js.map
--- a/x/static/js/3167.312d0953.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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-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 69c6ea16c148 -r 1efcc387bef4 x/static/js/3175.af2c93a5.chunk.js
--- a/x/static/js/3175.af2c93a5.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3175.af2c93a5.chunk.js.map
--- a/x/static/js/3175.af2c93a5.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3199.a36b17a7.chunk.js
--- a/x/static/js/3199.a36b17a7.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3274.053c3df5.chunk.js
--- a/x/static/js/3274.053c3df5.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3274.053c3df5.chunk.js.map
--- a/x/static/js/3274.053c3df5.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3301.db457761.chunk.js.LICENSE.txt
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3304.65e5d8dd.chunk.js
--- a/x/static/js/3304.65e5d8dd.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3304.65e5d8dd.chunk.js.map
--- a/x/static/js/3304.65e5d8dd.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/3311.92fac4a6.chunk.js
--- a/x/static/js/3311.92fac4a6.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3311.92fac4a6.chunk.js.map
--- a/x/static/js/3311.92fac4a6.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3368.6e9b017b.chunk.js
--- a/x/static/js/3368.6e9b017b.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3384.e146a796.chunk.js
--- a/x/static/js/3384.e146a796.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3384.e146a796.chunk.js.map
--- a/x/static/js/3384.e146a796.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3416.f7c72cbe.chunk.js
--- a/x/static/js/3416.f7c72cbe.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3416.f7c72cbe.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3425.be85a6ad.chunk.js
--- a/x/static/js/3425.be85a6ad.chunk.js Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/3425.be85a6ad.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3474.8c1888be.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3497.9db6611b.chunk.js
--- a/x/static/js/3497.9db6611b.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3497.9db6611b.chunk.js.map
--- a/x/static/js/3497.9db6611b.chunk.js.map Sat Oct 12 23:11:22 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":""}
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3525.e74d3ff0.chunk.js
--- a/x/static/js/3525.e74d3ff0.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3525.e74d3ff0.chunk.js.map
--- a/x/static/js/3525.e74d3ff0.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3550.089089a8.chunk.js
--- a/x/static/js/3550.089089a8.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3550.089089a8.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3578.058bdae5.chunk.js
--- a/x/static/js/3578.058bdae5.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3578.058bdae5.chunk.js.map
--- a/x/static/js/3578.058bdae5.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3614.af493134.chunk.js
--- a/x/static/js/3614.af493134.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3614.af493134.chunk.js.map
--- a/x/static/js/3614.af493134.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/366.b00bf6ca.chunk.js
--- a/x/static/js/366.b00bf6ca.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/366.b00bf6ca.chunk.js.map
--- a/x/static/js/366.b00bf6ca.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3682.840e721c.chunk.js
--- a/x/static/js/3682.840e721c.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3862.9fd8e870.chunk.js
--- a/x/static/js/3862.9fd8e870.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3862.9fd8e870.chunk.js.map
--- a/x/static/js/3862.9fd8e870.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/3902.69c7ff0c.chunk.js
--- a/x/static/js/3902.69c7ff0c.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3902.69c7ff0c.chunk.js.LICENSE.txt
--- a/x/static/js/3902.69c7ff0c.chunk.js.LICENSE.txt Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
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- *
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- * @license MIT
- */

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3902.69c7ff0c.chunk.js.map
--- a/x/static/js/3902.69c7ff0c.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3940.c8b3da50.chunk.js
--- a/x/static/js/3940.c8b3da50.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/3940.c8b3da50.chunk.js.map
--- a/x/static/js/3940.c8b3da50.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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[Badge](https://mui.com/base-ui/react-badge/#hook)\\n *\\n * API:\\n *\\n * - [useBadge API](https://mui.com/base-ui/react-badge/hooks-api/#use-badge)\\n */\\nfunction useBadge(parameters) {\\n const {\\n badgeContent: badgeContentProp,\\n invisible: invisibleProp = false,\\n max: maxProp = 99,\\n showZero = false\\n } = parameters;\\n const prevProps = usePreviousProps({\\n badgeContent: badgeContentProp,\\n max: maxProp\\n });\\n let invisible = invisibleProp;\\n if (invisibleProp === false && badgeContentProp === 0 && !showZero) {\\n invisible = true;\\n }\\n const {\\n badgeContent,\\n max = maxProp\\n } = invisible ? prevProps : parameters;\\n const displayValue = badgeContent && Number(badgeContent) > max ? `${max}+` : badgeContent;\\n return {\\n badgeContent,\\n invisible,\\n max,\\n displayValue\\n };\\n}\\nexport default useBadge;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getBadgeUtilityClass(slot) {\\n return generateUtilityClass(\'MuiBadge\', slot);\\n}\\nconst badgeClasses = generateUtilityClasses(\'MuiBadge\', [\'root\', \'badge\', \'dot\', \'standard\', \'anchorOriginTopRight\', \'anchorOriginBottomRight\', \'anchorOriginTopLeft\', \'anchorOriginBottomLeft\', \'invisible\', \'colorError\', \'colorInfo\', \'colorPrimary\', \'colorSecondary\', \'colorSuccess\', \'colorWarning\', \'overlapRectangular\', \'overlapCircular\',\\n// TODO: v6 remove the overlap value from these class keys\\n\'anchorOriginTopLeftCircular\', \'anchorOriginTopLeftRectangular\', \'anchorOriginTopRightCircular\', \'anchorOriginTopRightRectangular\', \'anchorOriginBottomLeftCircular\', \'anchorOriginBottomLeftRectangular\', \'anchorOriginBottomRightCircular\', \'anchorOriginBottomRightRectangular\']);\\nexport default badgeClasses;"],"names":["BadgeRoot","styled","name","slot","overridesResolver","props","styles","root","position","display","verticalAlign","flexShrink","BadgeBadge","ownerState","badge","variant","capitalize","anchorOrigin","vertical","horizontal","overlap","color","invisible","memoTheme","theme","flexDirection","flexWrap","justifyContent","alignContent","alignItems","boxSizing","fontFamily","typography","fontWeight","fontWeightMedium","fontSize","pxToRem","minWidth","RADIUS_STANDARD","lineHeight","padding","height","borderRadius","zIndex","transition","transitions","create","easing","easeInOut","duration","enteringScreen","variants","Object","entries","palette","filter","createSimplePaletteValueFilter","map","style","backgroundColor","vars","main","contrastText","RADIUS_DOT","top","right","transform","transformOrigin","badgeClasses","bottom","left","leavingScreen","inProps","ref","anchorOriginProp","className","classes","classesProp","component","components","componentsProps","children","overlapProp","colorProp","invisibleProp","max","maxProp","badgeContent","badgeContentProp","slots","slotProps","showZero","variantProp","other","invisibleFromHook","displayValue","displayValueFromHook","parameters","prevProps","usePreviousProps","Number","undefined","composeClasses","useUtilityClasses","RootSlot","Root","BadgeSlot","Badge","rootSlotProps","badgeSlotProps","rootProps","useSlotProps","elementType","externalSlotProps","externalForwardedProps","additionalProps","as","clsx","badgeProps","getBadgeUtilityClass"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/399.e36b7683.chunk.js
--- a/x/static/js/399.e36b7683.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/399.e36b7683.chunk.js.map
--- a/x/static/js/399.e36b7683.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4033.df8ecd0d.chunk.js
--- a/x/static/js/4033.df8ecd0d.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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-"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[4033],{34033:(e,t,a)=>{a.r(t),a.d(t,{default:()=>m});var l=a(7552),n=a(68446),r=a(49823),o=a(29499),c=a(36715),s=a(1343),i=a(58507),h=a(5401);const u=(0,a(75785).n9)()({root:{width:500}}),m=(0,n.observer)((function({model:e,handleClose:t}){const{classes:a}=u(),{maxHeight:n=""}=e,[m,d]=(0,l.useState)(`${n}`),b=""!==m&&!Number.isNaN(+m);return l.createElement(r.Dialog,{open:!0,onClose:t,title:"Set max height"},l.createElement(o.A,{className:a.root},l.createElement(c.A,null,'Set max height for the track. For example, you can increase this if the layout says "Max height reached"'),l.createElement(s.A,{value:m,onChange:e=>{d(e.target.value)},placeholder:"Enter max score"}),b?null:l.createElement("div",{style:{color:"red"}},"Invalid number")),l.createElement(i.A,null,l.createElement(h.A,{variant:"contained",color:"primary",type:"submit",autoFocus:!0,disabled:!b,onClick:()=>{e.setMaxHeight(+m),t()}},"Submit"),l.createElement(h.A,{variant:"contained",color:"secondary",onClick:()=>{t()}},"Cancel")))}))}}]);
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4033.df8ecd0d.chunk.js.map
--- a/x/static/js/4033.df8ecd0d.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4060.8757dbe8.chunk.js
--- a/x/static/js/4060.8757dbe8.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4060.8757dbe8.chunk.js.map
--- a/x/static/js/4060.8757dbe8.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4133.451f5e47.chunk.js
--- a/x/static/js/4133.451f5e47.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4138.57ad92a3.chunk.js.map
--- a/x/static/js/4138.57ad92a3.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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[

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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/419.021427b6.chunk.js
--- a/x/static/js/419.021427b6.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/419.021427b6.chunk.js.map
--- a/x/static/js/419.021427b6.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/4234.63e1ba57.chunk.js
--- a/x/static/js/4234.63e1ba57.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/4234.63e1ba57.chunk.js.map
--- a/x/static/js/4234.63e1ba57.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/4284.61dbc58f.chunk.js
--- a/x/static/js/4284.61dbc58f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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-"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[4284,7706],{94284:(e,t,n)=>{n.r(t),n.d(t,{default:()=>o});var r=n(7706),i=n(99546),a=n(99834),s=n(46377);class o extends s.BaseAdapter{async getData(){const e=this.pluginManager,t=this.getConf("cytobandLocation");if(""===t.uri||"/path/to/cytoband.txt.gz"===t.uri)return[];const n=await(0,a.openLocation)(t,e).readFile(),s=(0,i.isGzip)(n)?await(0,r.unzip)(n):n;return new TextDecoder("utf8",{fatal:!0}).decode(s).split(/\n|\r\n|\r/).filter((e=>!!e.trim())).map(((e,t)=>{const[n,r,a,s,o]=e.split("\t");return new i.SimpleFeature({uniqueId:`${t}`,refName:n,start:+r,end:+a,name:s,type:o})}))}freeResources(){}}},7706:(e,t,n)=>{n.d(t,{sG:()=>d,unzip:()=>s,i2:()=>o});var r=n(35451),i=n(45834),a=n(57864);async function s(e){try{let t,n=0,i=0;const s=[];let o,l=0;do{const r=e.subarray(n);if(o=new a.Inflate,({strm:t}=o),o.push(r,a.Z_SYNC_FLUSH),o.err)throw new Error(o.msg);n+=t.next_in,s[i]=o.result,l+=s[i].length,i+=1}while(t.avail_in);const h=new Uint8Array(l);for(let e=0,t=0;e<s.length;e++)h.set(s[e],t),t+=s[e].length;return r.hp.from(h)}catch(e){if(`${e}`.match(/incorrect header check/))throw new Error("problem decompressing block: incorrect gzip header check");throw e}}async function o(e,t){try{let n;const{minv:i,maxv:s}=t;let o=i.blockPosition,l=i.dataPosition;const h=[],c=[],d=[];let f=0,w=0;do{const t=e.subarray(o-i.blockPosition),r=new a.Inflate;if(({strm:n}=r),r.push(t,a.Z_SYNC_FLUSH),r.err)throw new Error(r.msg);const u=r.result;h.push(u);let g=u.length;c.push(o),d.push(l),1===h.length&&i.dataPosition&&(h[0]=h[0].subarray(i.dataPosition),g=h[0].length);const p=o;if(o+=n.next_in,l+=g,p>=s.blockPosition){h[w]=h[w].subarray(0,s.blockPosition===i.blockPosition?s.dataPosition-i.dataPosition+1:s.dataPosition+1),c.push(o),d.push(l),f+=h[w].length;break}f+=h[w].length,w++}while(n.avail_in);const u=new Uint8Array(f);for(let e=0,t=0;e<h.length;e++)u.set(h[e],t),t+=h[e].length;return{buffer:r.hp.from(u),cpositions:c,dpositions:d}}catch(e){if(`${e}`.match(/incorrect header check/))throw new Error("problem decompressing block: incorrect gzip header check");throw e}}var l=n(59086),h=n.n(l);class c{constructor({filehandle:e,path:t}){if(e)this.filehandle=e;else{if(!t)throw new TypeError("either filehandle or path must be defined");this.filehandle=new i.EY(t)}}_readLongWithOverflow(e,t=0,n=!0){const r=h().fromBytesLE(e.slice(t,t+8),n);if(r.greaterThan(Number.MAX_SAFE_INTEGER)||r.lessThan(Number.MIN_SAFE_INTEGER))throw new TypeError("integer overflow");return r.toNumber()}_getIndex(){return this.index||(this.index=this._readIndex()),this.index}async _readIndex(){let e=r.hp.allocUnsafe(8);await this.filehandle.read(e,0,8,0);const t=this._readLongWithOverflow(e,0,!0);if(!t)return[[0,0]];const n=new Array(t+1);n[0]=[0,0];const i=16*t;if(i>Number.MAX_SAFE_INTEGER)throw new TypeError("integer overflow");e=r.hp.allocUnsafe(i),await this.filehandle.read(e,0,i,8);for(let r=0;r<t;r+=1){const t=this._readLongWithOverflow(e,16*r),i=this._readLongWithOverflow(e,16*r+8);n[r+1]=[t,i]}return n}async getLastBlock(){const e=await this._getIndex();if(e.length)return e[e.length-1]}async getRelevantBlocksForRead(e,t){const n=t+e;if(0===e)return[];const r=await this._getIndex(),i=[],a=(e,n)=>{const r=e[1],i=n?n[1]:1/0;return r<=t&&i>t?0:r<t?-1:1};let s=0,o=r.length-1,l=Math.floor(r.length/2),h=a(r[l],r[l+1]);for(;0!==h;)h>0?o=l-1:h<0&&(s=l+1),l=Math.ceil((o-s)/2)+s,h=a(r[l],r[l+1]);i.push(r[l]);let c=l+1;for(;c<r.length&&(i.push(r[c]),!(r[c][1]>=n));c+=1);return i[i.length-1][1]<n&&i.push([]),i}}class d{constructor({filehandle:e,path:t,gziFilehandle:n,gziPath:r}){if(e)this.filehandle=e;else{if(!t)throw new TypeError("either filehandle or path must be defined");this.filehandle=new i.EY(t)}if(!n&&!r&&!t)throw new TypeError("either gziFilehandle or gziPath must be defined");this.gzi=new c({filehandle:n,path:n||r||!t?`${t}.gzi`:r})}async stat(){const e=await this.filehandle.stat();return Object.assign(e,{size:await this.getUncompressedFileSize(),blocks:void 0,blksize:void 0})}async getUncompressedFileSize(){const[,e]=await this.gzi.getLastBlock(),{size:t}=await this.filehandle.stat(),n=r.hp.allocUnsafe(4),{bytesRead:i}=await this.filehandle.read(n,0,4,t-28-4);if(4!==i)throw new Error("read error");return e+n.readUInt32LE(0)}async _readAndUncompressBlock(e,[t],[n]){let r=n;r||(r=(await this.filehandle.stat()).size);const i=r-t;return await this.filehandle.read(e,0,i,t),await s(e.slice(0,i))}async read(e,t,n,i){const a=await this.gzi.getRelevantBlocksForRead(n,i),s=r.hp.allocUnsafe(65536);let o=t,l=0;for(let t=0;t<a.length-1;t+=1){const r=await this._readAndUncompressBlock(s,a[t],a[t+1]),[,h]=a[t],c=h>=i?0:i-h,d=Math.min(i+n,h+r.length)-h;c>=0&&c<r.length&&(r.copy(e,o,c,d),o+=d-c,l+=d-c)}return{bytesRead:l,buffer:e}}}}}]);
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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4284.61dbc58f.chunk.js.map
--- a/x/static/js/4284.61dbc58f.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4345.0a9072cc.chunk.js
--- a/x/static/js/4345.0a9072cc.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4345.0a9072cc.chunk.js.map
--- a/x/static/js/4345.0a9072cc.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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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'

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--- a/x/static/js/4456.93a06b74.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4456.93a06b74.chunk.js.map
--- a/x/static/js/4456.93a06b74.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4499.3f0b2e70.chunk.js
--- a/x/static/js/4499.3f0b2e70.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2 +0,0 @@\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 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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 69c6ea16c148 -r 1efcc387bef4 x/static/js/4499.3f0b2e70.chunk.js.map
--- a/x/static/js/4499.3f0b2e70.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/457.6d7b716d.chunk.js
--- a/x/static/js/457.6d7b716d.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/457.6d7b716d.chunk.js.map
--- a/x/static/js/457.6d7b716d.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/4615.dc35870f.chunk.js
--- a/x/static/js/4615.dc35870f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4629.1f1a55a3.chunk.js
--- a/x/static/js/4629.1f1a55a3.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4629.1f1a55a3.chunk.js.map
--- a/x/static/js/4629.1f1a55a3.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/4630.f0bdb9f0.chunk.js
--- a/x/static/js/4630.f0bdb9f0.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4630.f0bdb9f0.chunk.js.map
--- a/x/static/js/4630.f0bdb9f0.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/4659.b65d8547.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4704.9b3995ff.chunk.js
--- a/x/static/js/4704.9b3995ff.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4704.9b3995ff.chunk.js.map
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No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4741.5a289f5d.chunk.js
--- a/x/static/js/4741.5a289f5d.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4741.5a289f5d.chunk.js.map
--- a/x/static/js/4741.5a289f5d.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4753.834007ba.chunk.js
--- a/x/static/js/4753.834007ba.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4753.834007ba.chunk.js.map
--- a/x/static/js/4753.834007ba.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4755.8d938db2.chunk.js
--- a/x/static/js/4755.8d938db2.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4755.8d938db2.chunk.js.map
--- a/x/static/js/4755.8d938db2.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/4770.3d757d6b.chunk.js
--- a/x/static/js/4770.3d757d6b.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
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-//# sourceMappingURL=4770.3d757d6b.chunk.js.map
\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4770.3d757d6b.chunk.js.map
--- a/x/static/js/4770.3d757d6b.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4773.6cd74b80.chunk.js
--- a/x/static/js/4773.6cd74b80.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4773.6cd74b80.chunk.js.map
--- a/x/static/js/4773.6cd74b80.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4806.7e497d7a.chunk.js
--- a/x/static/js/4806.7e497d7a.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
-"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 69c6ea16c148 -r 1efcc387bef4 x/static/js/4806.7e497d7a.chunk.js.map
--- a/x/static/js/4806.7e497d7a.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4861.6244e4c0.chunk.js
--- a/x/static/js/4861.6244e4c0.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4864.28cfc358.chunk.js
--- a/x/static/js/4864.28cfc358.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4864.28cfc358.chunk.js.map
--- a/x/static/js/4864.28cfc358.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/489.43cb4a5f.chunk.js
--- a/x/static/js/489.43cb4a5f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/489.43cb4a5f.chunk.js.map
--- a/x/static/js/489.43cb4a5f.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4902.452e575b.chunk.js
--- a/x/static/js/4902.452e575b.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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--- a/x/static/js/491.0011d1ad.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4947.2e80fd2d.chunk.js
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4947.2e80fd2d.chunk.js.map
--- a/x/static/js/4947.2e80fd2d.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/4974.cf97ef5b.chunk.js
--- a/x/static/js/4974.cf97ef5b.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/4974.cf97ef5b.chunk.js.map
--- a/x/static/js/4974.cf97ef5b.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/5031.6eccfd35.chunk.js
--- a/x/static/js/5031.6eccfd35.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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--- a/x/static/js/5090.bc77ac67.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5099.14f82444.chunk.js.LICENSE.txt
--- a/x/static/js/5099.14f82444.chunk.js.LICENSE.txt Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,12 +0,0 @@
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- */
-
-/*!
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5099.14f82444.chunk.js.map
--- a/x/static/js/5099.14f82444.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5132.00a31df0.chunk.js
--- a/x/static/js/5132.00a31df0.chunk.js Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/5189.3e22269d.chunk.js Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/5255.af554ced.chunk.js.LICENSE.txt Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5255.af554ced.chunk.js.map
--- a/x/static/js/5255.af554ced.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5260.e7b7aeb6.chunk.js
--- a/x/static/js/5260.e7b7aeb6.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5260.e7b7aeb6.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5327.8f1dcfc1.chunk.js
--- a/x/static/js/5327.8f1dcfc1.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5331.28d667f0.chunk.js
--- a/x/static/js/5331.28d667f0.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5331.28d667f0.chunk.js.map
--- a/x/static/js/5331.28d667f0.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5369.993afa3f.chunk.js
--- a/x/static/js/5369.993afa3f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5369.993afa3f.chunk.js.map
--- a/x/static/js/5369.993afa3f.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5461.5c8cf5d1.chunk.js
--- a/x/static/js/5461.5c8cf5d1.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5461.5c8cf5d1.chunk.js.map
--- a/x/static/js/5461.5c8cf5d1.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/5484.3ceeebff.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5484.3ceeebff.chunk.js.map
--- a/x/static/js/5484.3ceeebff.chunk.js.map Sat Oct 12 23:11:22 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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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5511.154ce441.chunk.js
--- a/x/static/js/5511.154ce441.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5515.671905b2.chunk.js
--- a/x/static/js/5515.671905b2.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5595.b4517d69.chunk.js
--- a/x/static/js/5595.b4517d69.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5595.b4517d69.chunk.js.LICENSE.txt
--- a/x/static/js/5595.b4517d69.chunk.js.LICENSE.txt Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-/**
- * @mui/x-data-grid v7.18.0
- *
- * @license MIT
- * This source code is licensed under the MIT license found in the
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- */

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5595.b4517d69.chunk.js.map
--- a/x/static/js/5595.b4517d69.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5608.1b8d39e1.chunk.js
--- a/x/static/js/5608.1b8d39e1.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/561.8b38948f.chunk.js
--- a/x/static/js/561.8b38948f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/561.8b38948f.chunk.js.map
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`rgba(${theme.vars.palette.primary.mainChannel} / ${theme.vars.palette.action.selectedOpacity})` : alpha(theme.palette.primary.main, theme.palette.action.selectedOpacity),\n '&:hover': {\n backgroundColor: theme.vars ? `rgba(${theme.vars.palette.primary.mainChannel} / calc(${theme.vars.palette.action.selectedOpacity} + ${theme.vars.palette.action.hoverOpacity}))` : alpha(theme.palette.primary.main, theme.palette.action.selectedOpacity + theme.palette.action.hoverOpacity)\n }\n }\n})));\nconst defaultComponent = 'tr';\n/**\n * Will automatically set dynamic row height\n * based on the material table element parent (head, body, etc).\n */\nconst TableRow = /*#__PURE__*/React.forwardRef(function TableRow(inProps, ref) {\n const props = useDefaultProps({\n props: inProps,\n name: 'MuiTableRow'\n });\n const {\n className,\n component = defaultComponent,\n hover = false,\n selected = false,\n ...other\n } = props;\n const tablelvl2 = React.useContext(Tablelvl2Context);\n const ownerState = {\n ...props,\n component,\n hover,\n selected,\n head: tablelvl2 && tablelvl2.variant === 'head',\n footer: tablelvl2 && tablelvl2.variant === 'footer'\n };\n const classes = useUtilityClasses(ownerState);\n return /*#__PURE__*/_jsx(TableRowRoot, {\n as: component,\n ref: ref,\n className: clsx(classes.root, className),\n role: component === defaultComponent ? 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--- a/x/static/js/5640.33b8306c.chunk.js Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/5668.73016b9c.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5668.73016b9c.chunk.js.map
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--- a/x/static/js/5676.818528e8.chunk.js Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/5676.818528e8.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5677.28a25579.chunk.js
--- a/x/static/js/5677.28a25579.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5677.28a25579.chunk.js.map
--- a/x/static/js/5677.28a25579.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5682.ea285a50.chunk.js
--- a/x/static/js/5682.ea285a50.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5682.ea285a50.chunk.js.map
--- a/x/static/js/5682.ea285a50.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/5727.f7a524b6.chunk.js
--- a/x/static/js/5727.f7a524b6.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5727.f7a524b6.chunk.js.map
--- a/x/static/js/5727.f7a524b6.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5736.48705208.chunk.js
--- a/x/static/js/5736.48705208.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5736.48705208.chunk.js.map
--- a/x/static/js/5736.48705208.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5746.39e4296b.chunk.js
--- a/x/static/js/5746.39e4296b.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5746.39e4296b.chunk.js.map
--- a/x/static/js/5746.39e4296b.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5763.48010c9a.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5896.622b5e88.chunk.js
--- a/x/static/js/5896.622b5e88.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5896.622b5e88.chunk.js.map
--- a/x/static/js/5896.622b5e88.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,1 +0,0 @@
-{"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 69c6ea16c148 -r 1efcc387bef4 x/static/js/5903.9145cef7.chunk.js
--- a/x/static/js/5903.9145cef7.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5903.9145cef7.chunk.js.map
--- a/x/static/js/5903.9145cef7.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 BreakendSingleLevelOptionDialog\\n"],"names":["useStyles","makeStyles","block","display","Checkbox2","checked","disabled","label","onChange","classes","React","FormControlLabel","className","control","Checkbox","stripIds","arr","map","id","displays","rest","observer","model","handleClose","feature","assemblyName","viewType","view","copyTracks","setCopyTracks","useState","mirror","setMirror","Dialog","open","onClose","title","DialogContent","event","target","DialogActions","Button","onClick","session","getSession","asm","assemblyManager","waitForAssembly","Error","refName","pos","mateRefName","matePos","getBreakendCoveringRegions","assembly","viewTracks","getSnapshot","tracks","breakpointSplitView","addView","type","displayName","get","views","hideHeader","reverse","r1","regions","find","r","r2","Promise","all","navToLocations","start","end","when","initialized","zoomTo","centerAt","e","console","error","notify","variant","color","autoFocus","windowSize","setWindowSize","useLocalStorage","TextField","value","w","Number","isNaN","gatherOverlaps","Math","max"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5904.240caa72.chunk.js
--- a/x/static/js/5904.240caa72.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2 +0,0 @@\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 69c6ea16c148 -r 1efcc387bef4 x/static/js/5904.240caa72.chunk.js.map
--- a/x/static/js/5904.240caa72.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5930.0ffd2546.chunk.js
--- a/x/static/js/5930.0ffd2546.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5930.0ffd2546.chunk.js.map
--- a/x/static/js/5930.0ffd2546.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5951.251be759.chunk.js
--- a/x/static/js/5951.251be759.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5951.251be759.chunk.js.map
--- a/x/static/js/5951.251be759.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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. Use when the component is not controlled.\n */\n defaultValue: PropTypes.any,\n /**\n * The name used to reference the value of the control.\n * If you don't provide this prop, it falls back to a randomly generated name.\n */\n name: PropTypes.string,\n /**\n * Callback fired when a radio button is selected.\n *\n * @param {React.ChangeEvent<HTMLInputElement>} event The event source of the callback.\n * @param {string} value The value of the selected radio button.\n * You can pull out the new value by accessing `event.target.value` (string).\n */\n onChange: PropTypes.func,\n /**\n * Value of the selected radio button. 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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/596.84c38eb7.chunk.js
--- a/x/static/js/596.84c38eb7.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/596.84c38eb7.chunk.js.map
--- a/x/static/js/596.84c38eb7.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5998.22bd8296.chunk.js
--- a/x/static/js/5998.22bd8296.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/5998.22bd8296.chunk.js.map
--- a/x/static/js/5998.22bd8296.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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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}\\n}\\n"],"names":["convertTrackConfig","jb1TrackConfig","dataRoot","sequenceAdapter","jb2TrackConfig","trackId","objectHash","name","key","label","description","metadata","Description","category","split","storeClass","urlTemplate","endsWith","trackIdentifier","console","warn","generateUnsupportedTrackConf","jb2Features","features","map","feature","jb2Feature","JSON","parse","stringify","refName","seq_id","uniqueId","start","end","adapter","type","generateFromConfigTrackConfig","resolveUrlTemplate","URL","href","replaceAll","bamLocation","uri","locationType","baiUrlTemplate","index","location","csiUrlTemplate","indexType","cramLocation","craiLocation","craiUrlTemplate","rootUrlTemplate","defaultRendering","bigWigLocation","vcfGzLocation","tbiUrlTemplate","gffLocation","bigBedLocation","gffGzLocation","bedGzLocation","gtfLocation","fastaLocation","faiLocation","faiUrlTemplate","gziLocation","gziUrlTemplate","twoBitLocation","guessAdapter","undefined","UNSUPPORTED","UNKNOWN","generateUnknownTrackConf","guessTrackType"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6021.21769087.chunk.js
--- a/x/static/js/6021.21769087.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6021.21769087.chunk.js.map
--- a/x/static/js/6021.21769087.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6043.e402bf73.chunk.js
--- a/x/static/js/6043.e402bf73.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
-"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[6043],{8424:(e,t,a)=>{a.r(t),a.d(t,{default:()=>m});var r=a(7552),o=a(68446),l=a(29499),n=a(36715),c=a(1343),s=a(58507),i=a(5401),d=a(49823);const m=(0,o.observer)((function({model:e,handleClose:t}){const[a,o]=(0,r.useState)(""),m=/^[A-Za-z][A-Za-z0-9]$/.exec(a);return r.createElement(d.Dialog,{open:!0,onClose:t,title:"Color by tag"},r.createElement(l.A,{style:{overflowX:"hidden"}},r.createElement(n.A,null,"Enter tag to color by: "),r.createElement(n.A,{color:"textSecondary"},"Examples: XS or TS for RNA-seq inferred read strand, ts (lower-case) for minimap2 read strand, HP for haplotype, RG for read group, etc."),r.createElement(c.A,{value:a,onChange:e=>{o(e.target.value)},placeholder:"Enter tag name",inputProps:{maxLength:2},error:2===a.length&&!m,helperText:2!==a.length||m?"":"Not a valid tag",autoComplete:"off"}),r.createElement(s.A,null,r.createElement(i.A,{variant:"contained",color:"primary",onClick:()=>{e.setColorScheme({type:"tag",tag:a}),t()},disabled:!m},"Submit"),r.createElement(i.A,{variant:"contained",color:"secondary",onClick:t},"Cancel"))))}))}}]);
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6043.e402bf73.chunk.js.map
--- a/x/static/js/6043.e402bf73.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6054.e0881c55.chunk.js
--- a/x/static/js/6054.e0881c55.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6054.e0881c55.chunk.js.map
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integerPropType,\\n /**\\n * If set to \'true\' and orientation is horizontal,\\n * then the step label will be positioned under the icon.\\n * @default false\\n */\\n alternativeLabel: PropTypes.bool,\\n /**\\n * Two or more `<Step />` components.\\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 * An element to be placed between each step.\\n * @default <StepConnector />\\n */\\n connector: PropTypes.element,\\n /**\\n * If set the `Stepper` will not assist in controlling steps for linear flow.\\n * @default false\\n */\\n nonLinear: PropTypes.bool,\\n /**\\n * The component orientation (layout flow direction).\\n * @default \'horizontal\'\\n */\\n orientation: PropTypes.oneOf([\'horizontal\', \'vertical\']),\\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 Stepper;","import * as React from \'react\';\\n/**\\n * Provides information about the current step in Stepper.\\n */\\nconst StepperContext = /*#__PURE__*/React.createContext({});\\nif (process.env.NODE_ENV !== \'production\') {\\n StepperContext.displayName = \'StepperContext\';\\n}\\n\\n/**\\n * Returns the current StepperContext or an empty object if no StepperContext\\n * has been defined in the component tree.\\n */\\nexport function useStepperContext() {\\n return React.useContext(StepperContext);\\n}\\nexport default StepperContext;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from 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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6149.c6c4af73.chunk.js
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6235.93768761.chunk.js
--- a/x/static/js/6235.93768761.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6235.93768761.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6310.ae82dc58.chunk.js
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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 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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 69c6ea16c148 -r 1efcc387bef4 x/static/js/6391.aabba4a1.chunk.js.map
--- a/x/static/js/6391.aabba4a1.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6395.f6027b24.chunk.js
--- a/x/static/js/6395.f6027b24.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6397.8fc250af.chunk.js
--- a/x/static/js/6397.8fc250af.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6514.d36ecbb8.chunk.js
--- a/x/static/js/6514.d36ecbb8.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6514.d36ecbb8.chunk.js.map
--- a/x/static/js/6514.d36ecbb8.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6526.b2c8fd93.chunk.js
--- a/x/static/js/6526.b2c8fd93.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6621.cf64e54c.chunk.js
--- a/x/static/js/6621.cf64e54c.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6621.cf64e54c.chunk.js.map
--- a/x/static/js/6621.cf64e54c.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6658.fe512b5a.chunk.js
--- a/x/static/js/6658.fe512b5a.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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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borderLeftStyle: \'solid\',\\n borderLeftWidth: 1,\\n minHeight: 24\\n }\\n }]\\n };\\n}));\\nconst StepConnector = /*#__PURE__*/React.forwardRef(function StepConnector(inProps, ref) {\\n const props = useDefaultProps({\\n props: inProps,\\n name: \'MuiStepConnector\'\\n });\\n const {\\n className,\\n ...other\\n } = props;\\n const {\\n alternativeLabel,\\n orientation = \'horizontal\'\\n } = React.useContext(StepperContext);\\n const {\\n active,\\n disabled,\\n completed\\n } = React.useContext(StepContext);\\n const ownerState = {\\n ...props,\\n alternativeLabel,\\n orientation,\\n active,\\n completed,\\n disabled\\n };\\n const classes = useUtilityClasses(ownerState);\\n return /*#__PURE__*/_jsx(StepConnectorRoot, {\\n className: clsx(classes.root, className),\\n ref: ref,\\n ownerState: ownerState,\\n ...other,\\n children: /*#__PURE__*/_jsx(StepConnectorLine, {\\n className: classes.line,\\n ownerState: ownerState\\n })\\n });\\n});\\nprocess.env.NODE_ENV !== \\"production\\" 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--- a/x/static/js/6683.2a35f0fe.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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--- a/x/static/js/6703.faa93a20.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6746.8d3f75be.chunk.js.map
--- a/x/static/js/6746.8d3f75be.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6785.07d4b66b.chunk.js
--- a/x/static/js/6785.07d4b66b.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6799.754a77ae.chunk.js
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6823.6e35b0cf.chunk.js
--- a/x/static/js/6823.6e35b0cf.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6823.6e35b0cf.chunk.js.map
--- a/x/static/js/6823.6e35b0cf.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6833.c77c5928.chunk.js
--- a/x/static/js/6833.c77c5928.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
-"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(){}}}}]);
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6833.c77c5928.chunk.js.map
--- a/x/static/js/6833.c77c5928.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6834.bc9e9f2b.chunk.js
--- a/x/static/js/6834.bc9e9f2b.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 getFeaturesHelper(e,t,r,s,a=e){const{signal:n}=t,i=this.getConf("scoreColumn"),o=this.getConf("aggregateField"),{parser:d,bigbed:f}=await this.configure(t),h=await f.getFeatures(e.refName,e.start,e.end,{signal:n,basesPerSpan:e.end-e.start});if(s&&h.length){let s=Number.POSITIVE_INFINITY,a=Number.NEGATIVE_INFINITY;for(const e of h)e.start<s&&(s=e.start),e.end>a&&(a=e.end);if(a>e.end||s<e.start)return void await this.getFeaturesHelper({...e,start:s,end:a},t,r,!1,e)}const l={};if(h.some((e=>void 0===e.uniqueId)))throw new Error("found uniqueId undefined");for(const t of h){const s=d.parseLine(`${e.refName}\t${t.start}\t${t.end}\t${t.rest}`,{uniqueId:t.uniqueId}),n=s[o];l[n]||(l[n]=[]);const{uniqueId:f,type:h,chromStart:m,chromStarts:p,blockStarts:b,blockCount:S,blockSizes:k,chromEnd:N,thickStart:g,thickEnd:y,chrom:I,score:C,...w}=s,q=S?(0,u.zZ)({chromStarts:p,blockStarts:b,blockCount:S,blockSizes:k,uniqueId:f,refName:e.refName,start:t.start}):[];if((0,u.Vl)(s)){const 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--- a/x/static/js/6837.a706c464.chunk.js Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/6861.66a2e4c0.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6932.a37ea756.chunk.js
--- a/x/static/js/6932.a37ea756.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6932.a37ea756.chunk.js.map
--- a/x/static/js/6932.a37ea756.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6946.dd09a891.chunk.js
--- a/x/static/js/6946.dd09a891.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6946.dd09a891.chunk.js.map
--- a/x/static/js/6946.dd09a891.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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false\\n}\\n"],"names":["fillRectCtx","x","y","width","height","ctx","fillColor","fillStyle","fillRect","strokeRectCtx","strokeColor","strokeStyle","strokeRect","getPairedColor","type","v0","v1","stats","getPairedInsertSizeAndOrientationColor","getPairedOrientationColor","getPairedInsertSizeColor","s","Math","min","start","e","max","end","log10","abs","drawFeats","self","chainData","assemblyManager","getSession","view","getContainingView","assemblyName","assemblyNames","asm","get","hasPairedReads","coords","featureHeight","getConf","colorBy","chains","chain","length","ra1","getCanonicalRefName","refName","ra2","r1s","bpToPx","coord","offsetPx","r1e","r2s","r2e","distance","undefined","push","drawSingletons","w1","maxD","log","map","c","minD","scaler","w2","fill","stroke","top","halfHeight","w","drawPairChains","distances","minXs","minX","Number","MAX_VALUE","maxX","MIN_VALUE","elt","rs","re","i","c1","primaryStrand","flags","res","SA","split","strand","ra","l","drawLongReadChains","features","f","values"],"sourceRoot":""}\n\\ 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--- a/x/static/js/6999.3486cca0.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/6999.3486cca0.chunk.js.map
--- a/x/static/js/6999.3486cca0.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/7013.5240d550.chunk.js
--- a/x/static/js/7013.5240d550.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7013.5240d550.chunk.js.map
--- a/x/static/js/7013.5240d550.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/7067.e9508417.chunk.js
--- a/x/static/js/7067.e9508417.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7087.79101e8e.chunk.js
--- a/x/static/js/7087.79101e8e.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7117.b3239756.chunk.js
--- a/x/static/js/7117.b3239756.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7117.b3239756.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7126.b4b7d70b.chunk.js
--- a/x/static/js/7126.b4b7d70b.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7126.b4b7d70b.chunk.js.map
--- a/x/static/js/7126.b4b7d70b.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7181.938de865.chunk.js
--- a/x/static/js/7181.938de865.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7181.938de865.chunk.js.map
--- a/x/static/js/7181.938de865.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/7203.03e2b86a.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7203.03e2b86a.chunk.js.map
--- a/x/static/js/7203.03e2b86a.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/722.4329bc98.chunk.js
--- a/x/static/js/722.4329bc98.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/722.4329bc98.chunk.js.map
--- a/x/static/js/722.4329bc98.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/7309.f9d18abb.chunk.js
--- a/x/static/js/7309.f9d18abb.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7309.f9d18abb.chunk.js.map
--- a/x/static/js/7309.f9d18abb.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7348.40afbdc0.chunk.js
--- a/x/static/js/7348.40afbdc0.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7348.40afbdc0.chunk.js.map
--- a/x/static/js/7348.40afbdc0.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7374.932d083d.chunk.js
--- a/x/static/js/7374.932d083d.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7374.932d083d.chunk.js.map
--- a/x/static/js/7374.932d083d.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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This component will be removed in v7. See [Migrating from deprecated APIs](https://mui.com/material-ui/migration/migrating-from-deprecated-apis/) for more details.\n */\nconst ListItemSecondaryAction = /*#__PURE__*/React.forwardRef(function ListItemSecondaryAction(inProps, ref) {\n const props = useDefaultProps({\n props: inProps,\n name: 'MuiListItemSecondaryAction'\n });\n const {\n className,\n ...other\n } = props;\n const context = React.useContext(ListContext);\n const ownerState = {\n ...props,\n disableGutters: context.disableGutters\n };\n const classes = useUtilityClasses(ownerState);\n return /*#__PURE__*/_jsx(ListItemSecondaryActionRoot, {\n className: clsx(classes.root, className),\n ownerState: ownerState,\n ref: ref,\n ...other\n });\n});\nprocess.env.NODE_ENV !== \"production\" ? 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/7389.fa6a1eb0.chunk.js
--- a/x/static/js/7389.fa6a1eb0.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7389.fa6a1eb0.chunk.js.map
--- a/x/static/js/7389.fa6a1eb0.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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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 69c6ea16c148 -r 1efcc387bef4 x/static/js/7407.4421929d.chunk.js
--- a/x/static/js/7407.4421929d.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7407.4421929d.chunk.js.map
--- a/x/static/js/7407.4421929d.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/7409.8e71acc1.chunk.js
--- a/x/static/js/7409.8e71acc1.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7409.8e71acc1.chunk.js.map
--- a/x/static/js/7409.8e71acc1.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/741.a9772d36.chunk.js
--- a/x/static/js/741.a9772d36.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/741.a9772d36.chunk.js.map
--- a/x/static/js/741.a9772d36.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7418.2ac24978.chunk.js
--- a/x/static/js/7418.2ac24978.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7418.2ac24978.chunk.js.map
--- a/x/static/js/7418.2ac24978.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7428.1e6f676f.chunk.js
--- a/x/static/js/7428.1e6f676f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7428.1e6f676f.chunk.js.map
--- a/x/static/js/7428.1e6f676f.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7489.b8a76d29.chunk.js
--- a/x/static/js/7489.b8a76d29.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7489.b8a76d29.chunk.js.map
--- a/x/static/js/7489.b8a76d29.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7564.3a461e67.chunk.js
--- a/x/static/js/7564.3a461e67.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7564.3a461e67.chunk.js.map
--- a/x/static/js/7564.3a461e67.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7579.1b98701c.chunk.js
--- a/x/static/js/7579.1b98701c.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7579.1b98701c.chunk.js.map
--- a/x/static/js/7579.1b98701c.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/7584.a162e3d6.chunk.js Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/759.9c32be0d.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7627.31dfd44e.chunk.js
--- a/x/static/js/7627.31dfd44e.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7627.31dfd44e.chunk.js.map
--- a/x/static/js/7627.31dfd44e.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/765.20669bca.chunk.js
--- a/x/static/js/765.20669bca.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/765.20669bca.chunk.js.map
--- a/x/static/js/765.20669bca.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,1 +0,0 @@
-{"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 69c6ea16c148 -r 1efcc387bef4 x/static/js/7663.e79b053a.chunk.js
--- a/x/static/js/7663.e79b053a.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7663.e79b053a.chunk.js.map
--- a/x/static/js/7663.e79b053a.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/7706.430ce07e.chunk.js
--- a/x/static/js/7706.430ce07e.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7706.430ce07e.chunk.js.map
--- a/x/static/js/7706.430ce07e.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/772.83c2d2db.chunk.js
--- a/x/static/js/772.83c2d2db.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/772.83c2d2db.chunk.js.map
--- a/x/static/js/772.83c2d2db.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7753.87963fd9.chunk.js
--- a/x/static/js/7753.87963fd9.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7753.87963fd9.chunk.js.map
--- a/x/static/js/7753.87963fd9.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7761.0cf7cf29.chunk.js
--- a/x/static/js/7761.0cf7cf29.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7761.0cf7cf29.chunk.js.map
--- a/x/static/js/7761.0cf7cf29.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7773.7e072552.chunk.js
--- a/x/static/js/7773.7e072552.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7790.3790bece.chunk.js
--- a/x/static/js/7790.3790bece.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7790.3790bece.chunk.js.map
--- a/x/static/js/7790.3790bece.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/7809.eb2c5f08.chunk.js
--- a/x/static/js/7809.eb2c5f08.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7809.eb2c5f08.chunk.js.map
--- a/x/static/js/7809.eb2c5f08.chunk.js.map Sat Oct 12 23:11:22 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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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7831.cfcb0221.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7842.cbff451c.chunk.js.map
--- a/x/static/js/7842.cbff451c.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/7864.59d0de32.chunk.js
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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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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`. Is passed to child components.\\n */\\n disabled: PropTypes.bool,\\n /**\\n * Expand the step.\\n * @default false\\n */\\n expanded: PropTypes.bool,\\n /**\\n * The position of the step.\\n * The prop defaults to the value inherited from the parent Stepper component.\\n */\\n index: integerPropType,\\n /**\\n * If `true`, the Step is displayed as rendered last.\\n * The prop defaults to the value inherited from the parent Stepper component.\\n */\\n last: 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} : void 0;\\nexport default Step;","import * 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;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getStepUtilityClass(slot) {\\n return generateUtilityClass(\'MuiStep\', slot);\\n}\\nconst stepClasses = generateUtilityClasses(\'MuiStep\', [\'root\', \'horizontal\', \'vertical\', \'alternativeLabel\', \'completed\']);\\nexport default stepClasses;","import * as React from \'react\';\\n/**\\n * Provides information about the current step in Stepper.\\n */\\nconst StepperContext = /*#__PURE__*/React.createContext({});\\nif (process.env.NODE_ENV !== \'production\') {\\n StepperContext.displayName = \'StepperContext\';\\n}\\n\\n/**\\n * Returns the current StepperContext or an empty object if no StepperContext\\n * has been defined in the component tree.\\n */\\nexport function useStepperContext() {\\n return React.useContext(StepperContext);\\n}\\nexport default StepperContext;"],"names":["StepRoot","name","slot","overridesResolver","props","styles","ownerState","root","orientation","alternativeLabel","completed","variants","style","paddingLeft","paddingRight","flex","position","inProps","ref","active","activeProp","children","className","component","completedProp","disabled","disabledProp","expanded","index","last","other","activeStep","connector","nonLinear","undefined","contextValue","icon","classes","slots","useUtilityClasses","newChildren","as","Provider","value","StepContext","useStepContext","getStepUtilityClass","StepperContext","useStepperContext"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8007.3025c802.chunk.js
--- a/x/static/js/8007.3025c802.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8007.3025c802.chunk.js.LICENSE.txt
--- a/x/static/js/8007.3025c802.chunk.js.LICENSE.txt Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,14 +0,0 @@
-/*! *****************************************************************************
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-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 69c6ea16c148 -r 1efcc387bef4 x/static/js/8007.3025c802.chunk.js.map
--- a/x/static/js/8007.3025c802.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8052.7d772984.chunk.js
--- a/x/static/js/8052.7d772984.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8076.fc478e91.chunk.js
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8076.fc478e91.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8105.4fd35586.chunk.js
--- a/x/static/js/8105.4fd35586.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8105.4fd35586.chunk.js.map
--- a/x/static/js/8105.4fd35586.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8109.344e1845.chunk.js
--- a/x/static/js/8109.344e1845.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8120.85042513.chunk.js.map
--- a/x/static/js/8120.85042513.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8150.09c54606.chunk.js
--- a/x/static/js/8150.09c54606.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,1 +0,0 @@
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8165.d07843b4.chunk.js
--- a/x/static/js/8165.d07843b4.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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--- a/x/static/js/8187.383aefbf.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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--- a/x/static/js/8187.383aefbf.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8341.fa84fa67.chunk.js
--- a/x/static/js/8341.fa84fa67.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8341.fa84fa67.chunk.js.map
--- a/x/static/js/8341.fa84fa67.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/8343.dd515382.chunk.js
--- a/x/static/js/8343.dd515382.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8343.dd515382.chunk.js.map
--- a/x/static/js/8343.dd515382.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8408.2e2896bf.chunk.js
--- a/x/static/js/8408.2e2896bf.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8408.2e2896bf.chunk.js.map
--- a/x/static/js/8408.2e2896bf.chunk.js.map Sat Oct 12 23:11:22 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":""}
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8424.a1a3e663.chunk.js
--- a/x/static/js/8424.a1a3e663.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8424.a1a3e663.chunk.js.map
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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 69c6ea16c148 -r 1efcc387bef4 x/static/js/8435.484d30f8.chunk.js
--- a/x/static/js/8435.484d30f8.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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b'@@ -1,2 +0,0 @@\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 ${c}`);this.nameKey||(this.nameKey=s,this.name=t.slice(r+1)),this.data[s]=c}t||this.validate()}validate(){}}class r{constructor(n=[],e){this.data={};const{checkIndent:a=!0,skipValidation:r=!1}=null!=e?e:{};let i;i="string"==typeof n?n.trimEnd().split(/(?:[\\t ]*\\r?\\n){2,}/):n||[];for(const n of i){if(""===n)throw new Error("Invalid stanza, was empty");if(n.trim().startsWith("#")&&n.trimEnd().split(/\\r?\\n/).map((n=>n.trim())).every((n=>n.startsWith("#"))))continue;const e=new t(n,{checkIndent:a});if(this.nameKey){if(e.nameKey!==this.nameKey)throw new Error(`The first line in each stanza must have the same key. 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l{constructor(n){const[e,a,...r]=n.trimEnd().split(/(?:[\\t ]*\\r?\\n){2,}/);this.hubData=new t(e),this.validateHub(),this.genome=new t(a),this.validateGenomeSection(),this.tracks=new o(r.join("\\n\\n"),{skipValidation:!1})}validateHub(){if("hub"!==this.hubData.nameKey)throw new Error(\'Hub file must begin with a line like "hub 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y=a(68584),w=a(32761);function k(n,e){return new URL(n,e).href}async function L(n){const e=(0,d.getSession)(n),a=[];try{const t=(0,y.getConf)(n,"hubTxtLocation"),r=await(0,h.openLocation)(t).readFile("utf8"),i=k(t.uri,t.baseUri),{assemblyManager:o}=e;if(r.includes("useOneFile on")){const a=new l(r),{genome:s,tracks:c}=a,d=s.name;o.get(d)||e.addSessionAssembly({name:d,sequence:{type:"ReferenceSequenceTrack",trackId:`${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 69c6ea16c148 -r 1efcc387bef4 x/static/js/8435.484d30f8.chunk.js.map
--- a/x/static/js/8435.484d30f8.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8483.7fadf4ea.chunk.js
--- a/x/static/js/8483.7fadf4ea.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8483.7fadf4ea.chunk.js.map
--- a/x/static/js/8483.7fadf4ea.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/8526.5dd9c712.chunk.js
--- a/x/static/js/8526.5dd9c712.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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--- a/x/static/js/8528.f68ff14f.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8535.189d090a.chunk.js
--- a/x/static/js/8535.189d090a.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8535.189d090a.chunk.js.map
--- a/x/static/js/8535.189d090a.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8546.0a89cbee.chunk.js
--- a/x/static/js/8546.0a89cbee.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8546.0a89cbee.chunk.js.map
--- a/x/static/js/8546.0a89cbee.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8556.0053a402.chunk.js
--- a/x/static/js/8556.0053a402.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8556.0053a402.chunk.js.map
--- a/x/static/js/8556.0053a402.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8565.c4ea9980.chunk.js
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8624.190dd7af.chunk.js
--- a/x/static/js/8624.190dd7af.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8624.190dd7af.chunk.js.map
--- a/x/static/js/8624.190dd7af.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8678.8424d5dc.chunk.js
--- a/x/static/js/8678.8424d5dc.chunk.js Sat Oct 12 23:11:22 2024 +0000
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No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8704.ae4808df.chunk.js
--- a/x/static/js/8704.ae4808df.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8704.ae4808df.chunk.js.map
--- a/x/static/js/8704.ae4808df.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8762.3d2b9142.chunk.js
--- a/x/static/js/8762.3d2b9142.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8762.3d2b9142.chunk.js.map
--- a/x/static/js/8762.3d2b9142.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8797.3168365d.chunk.js
--- a/x/static/js/8797.3168365d.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8797.3168365d.chunk.js.map
--- a/x/static/js/8797.3168365d.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8856.4593419f.chunk.js
--- a/x/static/js/8856.4593419f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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--- a/x/static/js/8859.efb2561f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8859.efb2561f.chunk.js.map
--- a/x/static/js/8859.efb2561f.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8869.74066774.chunk.js
--- a/x/static/js/8869.74066774.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8869.74066774.chunk.js.map
--- a/x/static/js/8869.74066774.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8876.24bf6aed.chunk.js
--- a/x/static/js/8876.24bf6aed.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8876.24bf6aed.chunk.js.map
--- a/x/static/js/8876.24bf6aed.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8880.6ae9d985.chunk.js
--- a/x/static/js/8880.6ae9d985.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8880.6ae9d985.chunk.js.map
--- a/x/static/js/8880.6ae9d985.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8929.70ce258f.chunk.js
--- a/x/static/js/8929.70ce258f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
-"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)}}}}]);
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8929.70ce258f.chunk.js.map
--- a/x/static/js/8929.70ce258f.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1 +0,0 @@\n-{"version":3,"file":"static/js/8929.70ce258f.chunk.js","mappings":"sMACA,MAAMA,EACmB,oBAAhBC,YAA8B,IAAIA,YAAY,aAAUC,EA2BjE,SAASC,EACPC,EACAC,EACAC,EACAC,EACAC,EACAC,EACAC,EACAC,EACAC,GAEA,MAAO,CACLR,QACAC,SACAC,OACAE,QACAC,SACAC,OACAG,OAAoB,MAAZN,GAAmB,EAAI,EAC/BO,MAAO,CACLF,aACAG,SAAUC,KAAKC,IAAIX,EAAOD,EAAQK,EAAOD,GACzCS,YAAa,EACbC,GAAIR,GAGV,CC7Ce,MAAMS,UAAqBC,EAAAA,QACxC,cAAMC,CAASC,GACb,MAAMC,GAAMC,EAAAA,EAAAA,cAAaC,KAAKC,QAAQ,iBAAkBD,KAAKE,eACvDC,QAAgBL,EAAIM,SAASP,GAEnC,OD0CG,SAAuBM,GAC5B,IAAIE,EAAS,GACTC,EAAU,EACVC,EAAQ,EACRC,EAAS,GACTC,EAAS,GACTC,EAAW,GACXC,EAAU,EACVC,EAAQ,EACRC,EAAc,EACd5B,EAAQ,GACZ,MAAM6B,EAAU,GAEhB,IAAIC,EAAa,EACjB,KAAOA,EAAaZ,EAAOa,QAAQ,CACjC,MAAMC,EAAId,EAAOe,QAAQ,KAAMH,GAC/B,IAAW,IAAPE,EACF,MAEF,MAAME,EAAIhB,EAAOiB,SAASL,EAAYE,GAEtCF,EAAaE,EAAI,EACjB,MACMI,GAHK/C,GAASgD,OAAOH,IAAMA,EAAEI,YAAYC,OAE/BC,WAAW,IAAK,MACZC,MAAM,MAE1B,GAAiB,UAAbL,EAAM,GAAgB,CAuCxB,GArCIpC,GACF6B,EAAQa,KACNlD,EACE+B,EACAG,EACAC,EACAF,EACAL,EACAC,EACAC,EACAtB,EACA4B,IAkBNR,EAASgB,EAAM,GACff,GAAWe,EAAM,GACjBd,GAASc,EAAM,GACfb,EAASa,EAAM,GACfZ,EAASY,EAAM,GACfX,EAAWW,EAAM,GACjBV,GAAWU,EAAM,IACjBT,GAASS,EAAM,IACE,MAAbX,EAAkB,CACpB,MAAMkB,EAAMjB,EACZA,GAAWF,EAASG,EACpBA,GAASH,EAASmB,CACpB,CAGAf,EAAc,EACd5B,EAAQ,EACV,KAAO,CAQL,MAAM4C,GAA2BR,EAAM,IAAO,EACxCS,EAAiBT,EAAML,OAAS,GAAKK,EAAM,GAAM,EACjDU,EAAgBV,EAAML,OAAS,GAAKK,EAAM,GAAM,EAEtB,IAA5BQ,IACFhB,IAAgBgB,EAChB5C,GAAS,GAAG4C,MAEQ,IAAlBE,IACF9C,GAAS,GAAG8C,MAES,IAAnBD,IACF7C,GAAS,GAAG6C,KAEhB,CACF,CAgBA,OAbI7C,GACFR,EACE+B,EACAG,EACAC,EACAF,EACAL,EACAC,EACAC,EACAtB,EACA4B,GAGGC,CACT,CC3JWkB,EADKC,EAAAA,EAAAA,QAAO9B,SAAgB+B,EAAAA,EAAAA,OAAM/B,GAAUA,EAErD,E","sources":["../../../plugins/comparative-adapters/src/ChainAdapter/util.ts","../../../plugins/comparative-adapters/src/ChainAdapter/ChainAdapter.ts"],"sourcesContent":["import type { Buffer } from \'buffer\'\\nconst decoder =\\n typeof TextDecoder !== \'undefined\' ? new TextDecoder(\'utf8\') : undefined\\n\\n/* adapted from chain2paf by Andrea Guarracino, license reproduced below\\n *\\n * MIT License\\n *\\n * Copyright (c) 2021 Andrea Guarracino\\n *\\n * Permission is hereby granted, free of charge, to any person obtaining a copy\\n * of this software and associated documentation files (the \\"Software\\"), to deal\\n * in the Software without restriction, including without limitation the rights\\n * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell\\n * copies of the Software, and to permit persons to whom the Software is\\n * furnished to do so, subject to the following conditions:\\n *\\n * The above copyright notice and this permission notice shall be included in all\\n * copies or substantial portions of the Software.\\n *\\n * THE SOFTWARE IS PROVIDED \\"AS IS\\", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR\\n * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,\\n * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/8965.51db703f.chunk.js
--- a/x/static/js/8965.51db703f.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8965.51db703f.chunk.js.map
--- a/x/static/js/8965.51db703f.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/8984.1a816123.chunk.js
--- a/x/static/js/8984.1a816123.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9032.b54e1975.chunk.js
--- a/x/static/js/9032.b54e1975.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9032.b54e1975.chunk.js.map
--- a/x/static/js/9032.b54e1975.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9037.03715b7f.chunk.js
--- a/x/static/js/9037.03715b7f.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9067.1cc02121.chunk.js
--- a/x/static/js/9067.1cc02121.chunk.js Sat Oct 12 23:11:22 2024 +0000
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No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9070.d49de235.chunk.js
--- a/x/static/js/9070.d49de235.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9070.d49de235.chunk.js.map
--- a/x/static/js/9070.d49de235.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9086.035adaa3.chunk.js
--- a/x/static/js/9086.035adaa3.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9086.035adaa3.chunk.js.map
--- a/x/static/js/9086.035adaa3.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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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 undefined\\n}\\n"],"names":["transformer","t0","t1","k10","transform","unknown","x0","x1","interpolator","clamp","scale","x","isNaN","Math","max","min","range","interpolate","_","r0","r1","arguments","length","domain","rangeRound","t","copy","source","target","sequential","linear","init","apply","sequentialLog","log","base","n","floor","specifier","colors","Array","i","slice","async","makeImageData","ctx","props","features","config","bpPerPx","signal","resolution","sessionId","adapterConfig","useLogScale","colorScheme","regions","pluginManager","region","dataAdapter","getAdapter","res","getResolution","width","end","start","w","sqrt","baseColor","colord","readConfObject","offset","maxScore","minBin","maxBin","abortBreakPoint","bin1","bin2","counts","colorSchemes","juicebox","fall","interpolateRgbBasis","viridis","interpolateViridis","m","scaleSequentialLog","scaleSequential","save","reversed","translate","rotate","PI","Date","now","fillStyle","count","fillRect","restore"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9106.b274c701.chunk.js
--- a/x/static/js/9106.b274c701.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9106.b274c701.chunk.js.map
--- a/x/static/js/9106.b274c701.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/9114.d412d44e.chunk.js
--- a/x/static/js/9114.d412d44e.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
-"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 69c6ea16c148 -r 1efcc387bef4 x/static/js/9114.d412d44e.chunk.js.map
--- a/x/static/js/9114.d412d44e.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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":""}
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9168.6afdec67.chunk.js
--- a/x/static/js/9168.6afdec67.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9168.6afdec67.chunk.js.map
--- a/x/static/js/9168.6afdec67.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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* @default \'primary\'\\n */\\n color: PropTypes /* @typescript-to-proptypes-ignore */.oneOfType([PropTypes.oneOf([\'inherit\', \'primary\', \'secondary\']), 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 /**\\n * The value of the progress indicator for the determinate and buffer variants.\\n * Value between 0 and 100.\\n */\\n value: PropTypes.number,\\n /**\\n * The value for the buffer variant.\\n * Value between 0 and 100.\\n */\\n valueBuffer: PropTypes.number,\\n /**\\n * The variant to use.\\n * Use indeterminate or query when there is no progress value.\\n * @default \'indeterminate\'\\n */\\n variant: PropTypes.oneOf([\'buffer\', \'determinate\', \'indeterminate\', \'query\'])\\n} : void 0;\\nexport default LinearProgress;","import generateUtilityClasses from \'@mui/utils/generateUtilityClasses\';\\nimport generateUtilityClass from \'@mui/utils/generateUtilityClass\';\\nexport function getLinearProgressUtilityClass(slot) {\\n return generateUtilityClass(\'MuiLinearProgress\', slot);\\n}\\nconst linearProgressClasses = generateUtilityClasses(\'MuiLinearProgress\', [\'root\', \'colorPrimary\', \'colorSecondary\', \'determinate\', \'indeterminate\', \'buffer\', \'query\', \'dashed\', \'dashedColorPrimary\', \'dashedColorSecondary\', \'bar\', \'barColorPrimary\', \'barColorSecondary\', \'bar1Indeterminate\', \'bar1Determinate\', \'bar1Buffer\', \'bar2Indeterminate\', \'bar2Buffer\']);\\nexport default 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No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9206.bbf34514.chunk.js
--- a/x/static/js/9206.bbf34514.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,2 +0,0 @@
-"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 69c6ea16c148 -r 1efcc387bef4 x/static/js/9206.bbf34514.chunk.js.map
--- a/x/static/js/9206.bbf34514.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/9245.d882c265.chunk.js
--- a/x/static/js/9245.d882c265.chunk.js Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/9280.6e897b98.chunk.js.map
--- a/x/static/js/9280.6e897b98.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9292.96b77fb0.chunk.js
--- a/x/static/js/9292.96b77fb0.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9305.4d748fb5.chunk.js
--- a/x/static/js/9305.4d748fb5.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9305.4d748fb5.chunk.js.map
--- a/x/static/js/9305.4d748fb5.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9314.3e43d34c.chunk.js
--- a/x/static/js/9314.3e43d34c.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9314.3e43d34c.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9329.c269472b.chunk.js
--- a/x/static/js/9329.c269472b.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/937.4f610bdf.chunk.js
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/937.4f610bdf.chunk.js.map
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9372.67d6f914.chunk.js
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9372.67d6f914.chunk.js.map
--- a/x/static/js/9372.67d6f914.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9374.8ac7e6d7.chunk.js
--- a/x/static/js/9374.8ac7e6d7.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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-"use strict";(globalThis.webpackChunk_jbrowse_web=globalThis.webpackChunk_jbrowse_web||[]).push([[9374],{39374:(e,l,t)=>{t.r(l),t.d(l,{default:()=>m});var n=t(7552),r=t(29499),a=t(24387),c=t(58507),o=t(5401),i=t(49823);function m({handleClose:e}){return n.createElement(i.Dialog,{open:!0,maxWidth:"xl",onClose:e,title:"Using the search box"},n.createElement(r.A,null,n.createElement("h3",null,"Searching"),n.createElement("ul",null,n.createElement("li",null,"Jump to a feature or reference sequence by typing its name in the location box and pressing Enter."),n.createElement("li",null,"Jump to a specific region by typing the region into the location box as: ",n.createElement("code",null,"ref:start..end")," or ",n.createElement("code",null,"ref:start-end"),". Commas are allowed in the start and end coordinates. A space-separated list of locstrings can be used to open up multiple chromosomes at a time")),n.createElement("h3",null,"Example Searches"),n.createElement("ul",null,n.createElement("li",null,n.createElement("code",null,"BRCA")," - searches for the feature named BRCA"),n.createElement("li",null,n.createElement("code",null,"chr4")," - jumps to chromosome 4"),n.createElement("li",null,n.createElement("code",null,"chr4:79,500,000..80,000,000")," - jumps the region on chromosome 4 between 79.5Mb and 80Mb."),n.createElement("li",null,n.createElement("code",null,"chr1:1-100 chr2:1-100")," - create a split view of chr1:1-100 and chr2:1-100"),n.createElement("li",null,n.createElement("code",null,"chr1 chr2 chr3")," - open up multiple chromosomes at once"),n.createElement("li",null,n.createElement("code",null,"chr1:1-100[rev] chr2:1-100")," - open up the first region in the horizontally flipped orientation"),n.createElement("li",null,n.createElement("code",null,"chr1 100 200")," - use whitespace separated refname, start, end"))),n.createElement(a.A,null),n.createElement(c.A,null,n.createElement(o.A,{onClick:()=>{e()},color:"primary"},"Close")))}}}]);
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9374.8ac7e6d7.chunk.js.map
--- a/x/static/js/9374.8ac7e6d7.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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[

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\ No newline at end of file

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9384.a4e7a69a.chunk.js
--- a/x/static/js/9384.a4e7a69a.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9409.c7569196.chunk.js.map
--- a/x/static/js/9409.c7569196.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9449.2e1d2652.chunk.js
--- a/x/static/js/9449.2e1d2652.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9449.2e1d2652.chunk.js.map
--- a/x/static/js/9449.2e1d2652.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,1 +0,0 @@
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9458.07f0ae54.chunk.js
--- a/x/static/js/9458.07f0ae54.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /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\\" ? SpeedDialIcon.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 * 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 icon to display.\\n */\\n icon: PropTypes.node,\\n /**\\n * @ignore\\n * If `true`, the component is shown.\\n */\\n open: PropTypes.bool,\\n /**\\n * The icon to display in the SpeedDial Floating Action Button when the SpeedDial is open.\\n */\\n openIcon: PropTypes.node,\\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;\\nSpeedDialIcon.muiName = \'SpeedDialIcon\';\\nexport default SpeedDialIcon;"],"names":["createSvgIcon","d","getSpeedDialIconUtilityClass","slot","generateUtilityClass","generateUtilityClasses","SpeedDialIconRoot","styled","name","overridesResolver","props","styles","ownerState","icon","open","iconOpen","openIcon","iconWithOpenIconOpen","openIconOpen","root","memoTheme","theme","height","transition","transitions","create","duration","short","position","opacity","transform","variants","style","SpeedDialIcon","inProps","ref","className","iconProp","openIconProp","other","classes","slots","composeClasses","useUtilityClasses","formatIcon","newClassName","clsx","children","Add","muiName"],"sourceRoot":""}\n\\ No newline at end of file\n'

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/946.245d7df9.chunk.js
--- a/x/static/js/946.245d7df9.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/946.245d7df9.chunk.js.map
--- a/x/static/js/946.245d7df9.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9589.9087e0ea.chunk.js
--- a/x/static/js/9589.9087e0ea.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +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 69c6ea16c148 -r 1efcc387bef4 x/static/js/9589.9087e0ea.chunk.js.map
--- a/x/static/js/9589.9087e0ea.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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

diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/965.8524fdac.chunk.js
--- a/x/static/js/965.8524fdac.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/965.8524fdac.chunk.js.map
--- a/x/static/js/965.8524fdac.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9657.0cccd5bf.chunk.js
--- a/x/static/js/9657.0cccd5bf.chunk.js Sat Oct 12 23:11:22 2024 +0000
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--- a/x/static/js/9658.33669a59.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9675.b4f16970.chunk.js
--- a/x/static/js/9675.b4f16970.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9675.b4f16970.chunk.js.map
--- a/x/static/js/9675.b4f16970.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9756.4ac80c37.chunk.js
--- a/x/static/js/9756.4ac80c37.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9756.4ac80c37.chunk.js.map
--- a/x/static/js/9756.4ac80c37.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9824.b9ece376.chunk.js
--- a/x/static/js/9824.b9ece376.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9824.b9ece376.chunk.js.map
--- a/x/static/js/9824.b9ece376.chunk.js.map Sat Oct 12 23:11:22 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 69c6ea16c148 -r 1efcc387bef4 x/static/js/9831.de8b3aa9.chunk.js
--- a/x/static/js/9831.de8b3aa9.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2 +0,0 @@\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 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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 69c6ea16c148 -r 1efcc387bef4 x/static/js/9831.de8b3aa9.chunk.js.map
--- a/x/static/js/9831.de8b3aa9.chunk.js.map Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9870.f395e633.chunk.js
--- a/x/static/js/9870.f395e633.chunk.js Sat Oct 12 23:11:22 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/9943.d3ab0f18.chunk.js
--- a/x/static/js/9943.d3ab0f18.chunk.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/main.1532dd54.js
--- a/x/static/js/main.1532dd54.js Sat Oct 12 23:11:22 2024 +0000
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diff -r 69c6ea16c148 -r 1efcc387bef4 x/static/js/main.1532dd54.js.LICENSE.txt
--- a/x/static/js/main.1532dd54.js.LICENSE.txt Sat Oct 12 23:11:22 2024 +0000
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