Commit 6666fe7b authored by Blaise Li's avatar Blaise Li

Back to custom pybedtools.

parent 3bf44740
#!/bin/sh #!/bin/sh
/usr/bin/env python3 setup.py build_ext /usr/bin/env python3 setup.py build_ext
# .egg-link does not work with PYTHONPATH ? # .egg-link does not work with PYTHONPATH ?
# Install custom pybedtools first
/usr/bin/env python3 -m pip install -r requirements.txt
/usr/bin/env python3 -m pip install -e . /usr/bin/env python3 -m pip install -e .
/usr/bin/env python3 -m pip install --no-deps --ignore-installed . /usr/bin/env python3 -m pip install --no-deps --ignore-installed .
...@@ -5,7 +5,7 @@ networkx ...@@ -5,7 +5,7 @@ networkx
numpy numpy
pandas pandas
pyBigWig pyBigWig
# pybedtools @ git+https://github.com/blaiseli/pybedtools.git@fix_missing_headers --global-option="cythonize" pybedtools @ git+https://github.com/blaiseli/pybedtools.git@fix_missing_headers --global-option="cythonize"
pybedtools # pybedtools
scipy scipy
seaborn seaborn
...@@ -28,8 +28,8 @@ setup( ...@@ -28,8 +28,8 @@ setup(
"numpy", "numpy",
"pandas", "pandas",
"pyBigWig", "pyBigWig",
# "pybedtools @ git+https://github.com/blaiseli/pybedtools.git@fix_missing_headers", "pybedtools @ git+https://github.com/blaiseli/pybedtools.git@fix_missing_headers",
"pybedtools", # "pybedtools",
"scipy", "scipy",
"seaborn"], "seaborn"],
# specific versions and index would rather belong to requirements.txt # specific versions and index would rather belong to requirements.txt
......
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