Mercurial > repos > yhoogstrate > package_crossmap_0_2

diff tool_dependencies.xml @ 4:dbe83f5bef40 draft default tip

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planemo upload for repository https://github.com/ErasmusMC-Bioinformatics/crossmap_galaxy_wrapper commit 2a0f8a26551929e52f6aea1d109b8a3bda81af8b-dirty
author yhoogstrate
date Thu, 12 Nov 2015 16:07:42 -0500
parents bbc4d67d6a37
children
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--- a/tool_dependencies.xml	Thu Nov 12 09:06:02 2015 -0500
+++ b/tool_dependencies.xml	Thu Nov 12 16:07:42 2015 -0500
@@ -38,9 +38,14 @@
                 
                 Using - - root places the installation in:
                 $INSTALL_DIR / (python path dir) /
+                
+                
+                The setuptools shipped with galaxy's python version crashes if
+                a setuptools installation contains a setup_requires tag
                 -->
                 <action type="shell_command">
                     sed -i.bak -r "s/numpy.(sum|nan_to_num)+/np.\1/" "bin/CrossMap.py" ;
+                    sed -i.bak -r "s/setup_requires/#setup_requires/" "setup.py" ;
                     
                     python setup.py install --root $INSTALL_DIR &amp;&amp;
                     export SUB_DIR=$(dirname $(which python)) &amp;&amp;