Mercurial > repos > ximgchess > chap_test_20230411

changeset 158:0e0433b1651d draft

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planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline commit bd55c86b9f7bfabff0bbec1f10704850fec82f02-dirty
author ximgchess
date Fri, 30 Jun 2023 13:12:59 +0000
parents c65408e8fcf1
children b2e914633e61
files chapbook_demo/chapbook_demo.xml
diffstat 1 files changed, 4 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/chapbook_demo/chapbook_demo.xml	Fri Jun 30 13:02:29 2023 +0000
+++ b/chapbook_demo/chapbook_demo.xml	Fri Jun 30 13:12:59 2023 +0000
@@ -1,4 +1,4 @@
-<tool id="CHAP_chapbook_demo" name="CHAPbook" version="@TOOL_VERSION@+galaxy4" python_template_version="@PYTHON_TEMPLATE_VERSION@" profile="@PROFILE@">
+<tool id="CHAP_chapbook_demo" name="CHAPbook" version="@TOOL_VERSION@+galaxy5" python_template_version="@PYTHON_TEMPLATE_VERSION@" profile="@PROFILE@">
   <macros>
     <import>../macros.xml</import>
   </macros>
@@ -10,8 +10,9 @@
   </requirements>
   <command detect_errors="exit_code"><![CDATA[
       pip --exists-action i install certif-pyspec==1.5.3 &&
-      ln -s '$indir/*' '$__tool_directory__'&&
-      CHAP --config '$config'
+      ln -s $(realpath '$indir')/* '$__tool_directory__' &&
+      CHAP --config '$config' &&
+      find '$__tool_directory__' -type l -exec unlink {} \;
 ]]></command>
   <environment_variables>
     <environment_variable name="PYTHONPATH">/home/chess_chapaas/chess/chap/</environment_variable>