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comparison jbrowse2.xml @ 133:cec274db51c0 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 7d28252954cae9f8db5f8a85d8f29cb2865b504b-dirty
author fubar
date Fri, 18 Oct 2024 11:57:55 +0000
parents 1efcc387bef4
children ed3a21033188
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132:1efcc387bef4 133:cec274db51c0
18 <include path="maf2bed.py"/> 18 <include path="maf2bed.py"/>
19 <include path="bedscoreplugin.js"/> 19 <include path="bedscoreplugin.js"/>
20 </required_files> 20 </required_files>
21 <version_command>python '${__tool_directory__}/jbrowse2.py' --version</version_command> 21 <version_command>python '${__tool_directory__}/jbrowse2.py' --version</version_command>
22 <command detect_errors="aggressive"><![CDATA[ 22 <command detect_errors="aggressive"><![CDATA[
23 export SHELL="/bin/sh" &&
23 mkdir -p '$output.files_path' && 24 mkdir -p '$output.files_path' &&
24 cp '$trackxml' '$output.files_path/galaxy.xml' && 25 cp '$trackxml' '$output.files_path/galaxy.xml' &&
25 export JBROWSE2_PATH=\$(realpath \$(dirname \$(which jbrowse))/../opt/jbrowse2) && 26 export JBROWSE2_PATH=\$(realpath \$(dirname \$(which jbrowse))/../opt/jbrowse2) &&
26 #if $jbgen.ucol.formcoll=="collect": 27 #if $jbgen.ucol.formcoll=="collect":
27 python '$__tool_directory__/autogenJB2.py' 28 python '$__tool_directory__/autogenJB2.py'