Mercurial > repos > gga > apollo_fetch_jbrowse

comparison fetch_organism_jbrowse.xml @ 9:d8bb1f9b85b2 draft

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planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 49fe23e3fb330234900946352fbc3a86deeeb639
author gga
date Mon, 29 Jul 2019 10:09:38 -0400
parents 1a2976c6b161
children dca2fb399ee6
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8:331a3bde732e 9:d8bb1f9b85b2
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="fetch_jbrowse" name="Retrieve JBrowse" version="3.3" profile="16.04"> 2 <tool id="fetch_jbrowse" name="Retrieve JBrowse" version="@WRAPPER_VERSION@" profile="16.04">
3 <description>for an organism, from Apollo</description> 3 <description>for an organism, from Apollo</description>
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements"/> 7 <expand macro="requirements"/>
13 13
14 python $__tool_directory__/fetch_organism_jbrowse.py 14 python $__tool_directory__/fetch_organism_jbrowse.py
15 @ADMIN_AUTH@ 15 @ADMIN_AUTH@
16 16
17 @ORG_OR_GUESS@ 17 @ORG_OR_GUESS@
18 $jbrowse.files_path/ 18 $jbrowse.files_path/
19 19
20 "$__user_email__" && 20 "$__user_email__" &&
21 21
22 cp $dummyIndex $jbrowse && 22 cp $dummyIndex $jbrowse &&
23 find $jbrowse.files_path -type f -printf '<li><a href="%P">%P</a></li>\n' | sort >> $jbrowse && 23 find $jbrowse.files_path -type f -printf '<li><a href="%P">%P</a></li>\n' | sort >> $jbrowse &&