# HG changeset patch
# User ximgchess
# Date 1688141976 0
# Node ID 29e197ae9a80a0861c9be263f472db4e6719187e
# Parent  952a2cf9e629776a80c44726d77603d9db533f20
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline commit bd55c86b9f7bfabff0bbec1f10704850fec82f02-dirty

diff -r 952a2cf9e629 -r 29e197ae9a80 chapbook_demo/chapbook_demo.xml
--- a/chapbook_demo/chapbook_demo.xml	Fri Jun 30 16:10:34 2023 +0000
+++ b/chapbook_demo/chapbook_demo.xml	Fri Jun 30 16:19:36 2023 +0000
@@ -1,4 +1,4 @@
-<tool id="CHAP_chapbook_demo" name="CHAPbook" version="@TOOL_VERSION@+galaxy10" python_template_version="@PYTHON_TEMPLATE_VERSION@" profile="@PROFILE@">
+<tool id="CHAP_chapbook_demo" name="CHAPbook" version="@TOOL_VERSION@+galaxy11" python_template_version="@PYTHON_TEMPLATE_VERSION@" profile="@PROFILE@">
   <macros>
     <import>../macros.xml</import>
   </macros>
@@ -17,20 +17,17 @@
       ## input directory provided by the user
       #import os.path
       #set $norm_indir = os.path.normpath(str($indir))
-      ln -s '$norm_indir'/* '$__tool_directory__' &&
+      ln -s '$norm_indir/*' . &&
 
       ## Run the pipeline provided
-      CHAP --config '$config' &&
-
-      ## Unlink the symlinks created previously
-      find '$__tool_directory__' -type l -exec unlink {} \;
+      CHAP --config '$config'
 ]]></command>
   <environment_variables>
     <environment_variable name="PYTHONPATH">/home/chess_chapaas/chess/chap/</environment_variable>
   </environment_variables>
   <inputs>
       <param type="data" name="config" format="yaml" label="Pipeline Configuration File" />
-      <param type="text" name="indir" label="Input Directory" help="DO NOT include a trailing slash"/>
+      <param type="text" name="indir" label="Input Directory" />
   </inputs>
   <outputs>
       <data name="data" format="nex" label="I vs q NeXus Data" />