Mercurial > repos > galaxyp > peptideshaker
comparison searchgui.xml @ 23:913dbf2b83e0 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit 464dc333f2e8d359265e1574b01386c4e7e9d840
| author | iracooke |
|---|---|
| date | Mon, 10 Aug 2015 18:25:37 -0400 |
| parents | e3be595c0bf5 |
| children | 815f93bb3e1b |
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| 22:e3be595c0bf5 | 23:913dbf2b83e0 |
|---|---|
| 18 #set $temp_stderr = "searchgui_stderr" | 18 #set $temp_stderr = "searchgui_stderr" |
| 19 | 19 |
| 20 mkdir output; | 20 mkdir output; |
| 21 mkdir output_reports; | 21 mkdir output_reports; |
| 22 cwd=`pwd`; | 22 cwd=`pwd`; |
| 23 export HOME=\$cwd; | |
| 23 | 24 |
| 24 cp -r "\${SEARCHGUI_JAR_PATH%/*}" bin; | 25 cp -r "\${SEARCHGUI_JAR_PATH%/*}" bin; |
| 25 tmp_searchgui_jar_path=`echo "\$cwd/bin/\${SEARCHGUI_JAR_PATH\#\#/*/}"`; | 26 tmp_searchgui_jar_path=`echo "\$cwd/bin/\${SEARCHGUI_JAR_PATH\#\#/*/}"`; |
| 26 | 27 |
| 27 #for $mgf in $peak_lists: | 28 #for $mgf in $peak_lists: |