Mercurial > repos > yhoogstrate > package_crossmap_0_2
comparison tool_dependencies.xml @ 8:ccdba4e903ca draft
planemo upload for repository https://github.com/ErasmusMC-Bioinformatics/crossmap_galaxy_wrapper commit d4e9fe61901a612c78d9f26f172537b27fd2ddbb-dirty
| author | yhoogstrate |
|---|---|
| date | Thu, 27 Aug 2015 05:29:48 -0400 |
| parents | 78cc94761311 |
| children | a6bb0ac6c402 |
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| 7:78cc94761311 | 8:ccdba4e903ca |
|---|---|
| 39 | 39 |
| 40 <!-- CrossMap doesn't pick up the correct Cython path. | 40 <!-- CrossMap doesn't pick up the correct Cython path. |
| 41 Therefore install it with a manual shell_command instead | 41 Therefore install it with a manual shell_command instead |
| 42 of <package></package> inside a pyton_env. --> | 42 of <package></package> inside a pyton_env. --> |
| 43 <action type="shell_command"> | 43 <action type="shell_command"> |
| 44 which python ; | |
| 45 | |
| 44 sed -i.bak -r "s/numpy.(sum|nan_to_num)+/np.\1(sig_list)/" "bin/CrossMap.py" ; | 46 sed -i.bak -r "s/numpy.(sum|nan_to_num)+/np.\1(sig_list)/" "bin/CrossMap.py" ; |
| 45 | 47 |
| 46 export PYTHONPATH="$CYTHON_PATH/lib/python/Cython-0.20.1-py2.7-linux-x86_64.egg:$PYTHONPATH" && | 48 export PYTHONPATH="$CYTHON_PATH/lib/python/Cython-0.20.1-py2.7-linux-x86_64.egg:$PYTHONPATH" && |
| 47 | 49 |
| 48 python setup.py install --root $INSTALL_DIR | 50 python setup.py install --root $INSTALL_DIR |