comparison tool_dependencies.xml @ 3:8ec1bf2ae8a9 draft

planemo upload for repository https://github.com/ErasmusMC-Bioinformatics/crossmap_galaxy_wrapper commit 3d756e33e5a551c55cfb91fd95785ce102a8c41f-dirty

2:84b0390c3868

                
                <!-- CrossMap doesn't pick up the correct Cython path.
                Therefore install it with a manual shell_command instead
                of <package></package> inside a pyton_env. -->
                <action type="shell_command">
                    sed -i.bak -r 's/numpy.(sum|nan_to_num)+/np.\1(sig_list)/' bin/CrossMap.py &amp;&amp;<!-- bigwig fix, unpatched in 0.2 -->
                    
                    export PYTHONPATH="$CYTHON_PATH/lib/python/Cython-0.20.1-py2.7-linux-x86_64.egg:$PYTHONPATH" &amp;&amp;
                    
                    python setup.py install --root $INSTALL_DIR
                </action>

3:8ec1bf2ae8a9

                
                <!-- CrossMap doesn't pick up the correct Cython path.
                Therefore install it with a manual shell_command instead
                of <package></package> inside a pyton_env. -->
                <action type="shell_command">
                    sed -i.bak -r "s/numpy.(sum|nan_to_num)+/np.\1(sig_list)/" "bin/CrossMap.py" ;
                    
                    export PYTHONPATH="$CYTHON_PATH/lib/python/Cython-0.20.1-py2.7-linux-x86_64.egg:$PYTHONPATH" &amp;&amp;
                    
                    python setup.py install --root $INSTALL_DIR
                </action>