Mercurial > repos > abretaud > package_busco_1_1b1

changeset 0:5bf6666ef8a3 draft

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Uploaded
author abretaud
date Mon, 18 Jan 2016 10:48:18 -0500
parents
children cbb7af96327a
files tool_dependencies.xml
diffstat 1 files changed, 79 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Mon Jan 18 10:48:18 2016 -0500
@@ -0,0 +1,79 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="augustus" version="3.1">
+        <repository changeset_revision="24009970003a" name="package_augustus_3_1" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="blast+" version="2.2.31">
+        <repository changeset_revision="16e1254ed634" name="package_blast_plus_2_2_31" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="hmmer" version="3.1b2">
+        <repository changeset_revision="040ca41b61c1" name="package_hmmer_3_1b2" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="python" version="3.4">
+        <repository changeset_revision="aca5076020ea" name="package_python_3_4" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="busco" version="1.1b1">
+        <install version="1.0">
+            <actions>
+
+                <action sha256sum="19e6e392185979571a7e5fb328ecdd43f91c10df0ccbedf4a355e26d9cc7153c" type="download_by_url">http://busco.ezlab.org/files/BUSCO_v1.1b1.tar.gz</action>
+
+                <action rename_to="BUSCO.py" type="move_file">
+                    <source>BUSCO_v1.1b1.py</source>
+                    <destination>$INSTALL_DIR</destination>
+                </action>
+
+                <action type="shell_command">mkdir $INSTALL_DIR/data</action>
+
+                <action type="change_directory">..</action>
+
+                <action sha256sum="b4fc2dbe18453b1f77b7f16619934363c219fd60493f18bcf3e2a353ac1eb048" type="download_by_url">http://busco.ezlab.org/files/arthropoda_buscos.tar.gz</action>
+
+                <action type="move_directory_files">
+                    <source_directory>arthropoda</source_directory>
+                    <destination_directory>$INSTALL_DIR/data/arthropoda</destination_directory>
+                </action>
+
+                <action sha256sum="bd416a2711364756210447cf79300ea42cced84609d0e4c7690a72140bccea3e" type="download_by_url">http://busco.ezlab.org/files/vertebrata_buscos.tar.gz</action>
+
+                <action type="move_directory_files">
+                    <source_directory>vertebrata</source_directory>
+                    <destination_directory>$INSTALL_DIR/data/vertebrata</destination_directory>
+                </action>
+
+                <action sha256sum="cd084b0e335b64316a8357c0953b4509fc2348e0c292c1c6b15b6e69dec50045" type="download_by_url">http://busco.ezlab.org/files/fungi_buscos.tar.gz</action>
+
+                <action type="move_directory_files">
+                    <source_directory>fungi</source_directory>
+                    <destination_directory>$INSTALL_DIR/data/fungi</destination_directory>
+                </action>
+
+                <action sha256sum="b3d0a588c1459f38d3fc574a604c429dcd4d6204fa1a7bf09a9b01d785a889bf" type="download_by_url">http://busco.ezlab.org/files/bacteria_buscos.tar.gz</action>
+
+                <action type="move_directory_files">
+                    <source_directory>bacteria</source_directory>
+                    <destination_directory>$INSTALL_DIR/data/bacteria</destination_directory>
+                </action>
+
+                <action sha256sum="1613fb6a0e7bec8d7d4aefc220e0e6272dfacc5753e016c29d7e3c3631fc07fd" type="download_by_url">http://busco.ezlab.org/files/metazoa_buscos.tar.gz</action>
+
+                <action type="move_directory_files">
+                    <source_directory>metazoa</source_directory>
+                    <destination_directory>$INSTALL_DIR/data/metazoa</destination_directory>
+                </action>
+
+                <action sha256sum="564f019b07ebeb8adfae43d2c9ef2b0235cc464c73c21aef1d5c22061ede4f5d" type="download_by_url">http://busco.ezlab.org/files/eukaryota_buscos.tar.gz</action>
+
+                <action type="move_directory_files">
+                    <source_directory>eukaryota</source_directory>
+                    <destination_directory>$INSTALL_DIR/data/eukaryota</destination_directory>
+                </action>
+
+                <action type="set_environment">
+                    <environment_variable action="set_to" name="BUSCO_ROOT_PATH">$INSTALL_DIR</environment_variable>
+                    <environment_variable action="set_to" name="BUSCO_DATA_PATH">$INSTALL_DIR/data</environment_variable>
+                </action>
+            </actions>
+        </install>
+    </package>
+</tool_dependency>