Mercurial > repos > mvdbeek > igv_take_screenshots

comparison igv_make_screenshots.xml @ 7:755832a07414 draft

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planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit 4824aeaa8107bd30ec786e8ca81779f053f0e736-dirty
author mvdbeek
date Mon, 03 Jul 2017 10:03:17 -0400
parents 54bc6c6d667c
children ff0fb6dde58e
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6:54bc6c6d667c 7:755832a07414
15 cat '$load_session' > load_session.txt && 15 cat '$load_session' > load_session.txt &&
16 echo snapshotDirectory "\$PWD" >> load_session.txt && 16 echo snapshotDirectory "\$PWD" >> load_session.txt &&
17 cat load_session.txt '$script_file' '$exit_session' > igv_script.txt && 17 cat load_session.txt '$script_file' '$exit_session' > igv_script.txt &&
18 python $__tool_directory__/xvfb_igv.py igv_script.txt $width,$height && 18 python $__tool_directory__/xvfb_igv.py igv_script.txt $width,$height &&
19 cp '$igv_session' '$igv_session_out' && 19 cp '$igv_session' '$igv_session_out' &&
20 zip '$screenshots_out' *.png 20 zip screenshots.zip *.png &&
21 cp screenshots.zip '$screenshots_out'
21 ]]></command> 22 ]]></command>
22 <configfiles> 23 <configfiles>
23 <configfile name="igv_session"><![CDATA[#set $genome=$inputfiles[0].input.metadata.dbkey 24 <configfile name="igv_session"><![CDATA[#set $genome=$inputfiles[0].input.metadata.dbkey
24 <?xml version="1.0" encoding="UTF-8" standalone="no"?> 25 <?xml version="1.0" encoding="UTF-8" standalone="no"?>
25 <Session genome="${genome}" hasGeneTrack="true" hasSequenceTrack="true" version="8"> 26 <Session genome="${genome}" hasGeneTrack="true" hasSequenceTrack="true" version="8">