Mercurial > repos > kkonganti > lexmapr2_from_cfsan

changeset 11:abb0fc18a85d

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"planemo upload"
author kkonganti
date Thu, 15 Sep 2022 13:53:29 -0400
parents af76096f7a10
children 530cafac56f9
files cfsan_lexmapr2.xml
diffstat 1 files changed, 2 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/cfsan_lexmapr2.xml	Thu Sep 15 13:44:56 2022 -0400
+++ b/cfsan_lexmapr2.xml	Thu Sep 15 13:53:29 2022 -0400
@@ -13,7 +13,7 @@
     </requirements>
     <version_command>python $__tool_directory__/lexmapr2.py --version</version_command>
     <command detect_errors="exit_code"><![CDATA[
-    echo $PYTHONPATH;
+    echo $PYTHONPATH 1>&2;
     mkdir -p lexmapr2-input || exit 1;
     ln -sf '$input' './lexmapr2-input/$input.name';
     python $__tool_directory__/lexmapr2.py
@@ -39,7 +39,7 @@
     ]]></command>
     <environment_variables>
         <environment_variable name="NLTK_DATA">/tool/tool-data/cfsan_lexmapr2/0/nltk_data</environment_variable>
-        <environment_variable name="PYTHONPATH">if [ ! -z "\$PYTHONPATH" ]; then echo "/tool/tool-data/cfsan_lexmapr2/0:\$PYTHONPATH"; else echo "\$PYTHONPATH"; fi</environment_variable>
+        <environment_variable name="PYTHONPATH">/tool/tool-data/cfsan_lexmapr2/0</environment_variable>
     </environment_variables>
     <inputs>
         <param name="input" type="data" format="csv" label="Input CSV"