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Adding tests and configuring tox.ini
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bioconda2biocontainer | ||
biopython | ||
cookiecutter | ||
cwltool | ||
docker | ||
galaxy-tool-util | ||
GitPython | ||
goenrichment | ||
jupyter | ||
matplotlib | ||
networkx | ||
numpy | ||
pandas | ||
pdf2image | ||
PyYAML | ||
requests | ||
scipy | ||
seaborn | ||
statsmodels | ||
urllib3 | ||
xmltodict |
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bioconda2biocontainer~=0.0.3 | ||
biopython~=1.77 | ||
cookiecutter~=1.7.2 | ||
cwltool~=3.0.20200710214758 | ||
docker~=4.2.2 | ||
galaxy-tool-util~=20.5.0 | ||
GitPython~=3.1.7 | ||
goenrichment~=0.0.10a3 | ||
jupyter~=1.0.0 | ||
matplotlib~=3.3.0 | ||
networkx~=2.4 | ||
numpy~=1.19.0 | ||
pandas~=1.0.5 | ||
pdf2image~=1.13.1 | ||
PyYAML~=5.3.1 | ||
requests~=2.24.0 | ||
scipy~=1.5.1 | ||
seaborn~=0.10.1 | ||
statsmodels~=0.11.1 | ||
urllib3~=1.25.9 | ||
xmltodict~=0.12.0 | ||
# SHA1:2016d815aabb3e67f3ea04ab7fed4def6fbdf0bf | ||
# | ||
# This file is autogenerated by pip-compile-multi | ||
# To update, run: | ||
# | ||
# pip-compile-multi | ||
# | ||
appnope==0.1.0 # via ipykernel, ipython | ||
argon2-cffi==20.1.0 # via notebook | ||
arrow==0.16.0 # via jinja2-time | ||
async-generator==1.10 # via nbclient | ||
attrs==20.2.0 # via jsonschema | ||
backcall==0.2.0 # via ipython | ||
bagit==1.7.0 # via cwltool | ||
binaryornot==0.4.4 # via cookiecutter | ||
bioconda2biocontainer==0.0.4 # via -r requirements/base.in | ||
biopython==1.78 # via -r requirements/base.in | ||
bleach==3.2.0 # via galaxy-util, nbconvert | ||
boltons==20.2.1 # via galaxy-util | ||
cachecontrol==0.11.7 # via schema-salad | ||
certifi==2020.6.20 # via matplotlib, requests | ||
cffi==1.14.2 # via argon2-cffi | ||
chardet==3.0.4 # via binaryornot, requests | ||
click==7.1.2 # via cookiecutter | ||
coloredlogs==14.0 # via cwltool | ||
cookiecutter==1.7.2 # via -r requirements/base.in | ||
cwltool==3.0.20200807132242 # via -r requirements/base.in | ||
cycler==0.10.0 # via matplotlib | ||
decorator==4.4.2 # via ipython, networkx | ||
defusedxml==0.6.0 # via nbconvert | ||
docker==4.3.1 # via -r requirements/base.in | ||
docutils==0.16 # via galaxy-util | ||
entrypoints==0.3 # via nbconvert | ||
galaxy-containers==20.5.0 # via galaxy-tool-util | ||
galaxy-tool-util==20.5.0 # via -r requirements/base.in | ||
galaxy-util==20.5.0 # via galaxy-containers, galaxy-tool-util | ||
gitdb==4.0.5 # via gitpython | ||
gitpython==3.1.8 # via -r requirements/base.in | ||
goenrichment==0.0.10a3 # via -r requirements/base.in | ||
humanfriendly==8.2 # via coloredlogs | ||
idna==2.10 # via requests | ||
importlib-metadata==1.7.0 # via jsonschema | ||
ipykernel==5.3.4 # via ipywidgets, jupyter, jupyter-console, notebook, qtconsole | ||
ipython-genutils==0.2.0 # via nbformat, notebook, qtconsole, traitlets | ||
ipython==7.18.1 # via ipykernel, ipywidgets, jupyter-console | ||
ipywidgets==7.5.1 # via jupyter | ||
isodate==0.6.0 # via rdflib | ||
jedi==0.17.2 # via ipython | ||
jinja2-time==0.2.0 # via cookiecutter | ||
jinja2==2.11.2 # via cookiecutter, jinja2-time, nbconvert, notebook | ||
jsonschema==3.2.0 # via nbformat | ||
jupyter-client==6.1.7 # via ipykernel, jupyter-console, nbclient, notebook, qtconsole | ||
jupyter-console==6.2.0 # via jupyter | ||
jupyter-core==4.6.3 # via jupyter-client, nbconvert, nbformat, notebook, qtconsole | ||
jupyter==1.0.0 # via -r requirements/base.in | ||
jupyterlab-pygments==0.1.1 # via nbconvert | ||
kiwisolver==1.2.0 # via matplotlib | ||
lockfile==0.12.2 # via schema-salad | ||
lxml==4.5.2 # via prov | ||
markupsafe==1.1.1 # via cookiecutter, galaxy-util, jinja2 | ||
matplotlib==3.3.2 # via -r requirements/base.in, seaborn | ||
mistune==0.8.4 # via nbconvert, schema-salad | ||
mypy-extensions==0.4.3 # via cwltool | ||
nbclient==0.5.0 # via nbconvert | ||
nbconvert==6.0.3 # via jupyter, notebook | ||
nbformat==5.0.7 # via ipywidgets, nbclient, nbconvert, notebook | ||
nest-asyncio==1.4.0 # via nbclient | ||
networkx==2.5 # via -r requirements/base.in, goenrichment, prov | ||
notebook==6.1.4 # via jupyter, widgetsnbextension | ||
numpy==1.19.2 # via -r requirements/base.in, biopython, goenrichment, matplotlib, pandas, patsy, scipy, seaborn, statsmodels | ||
packaging==20.4 # via bleach, galaxy-util | ||
pandas==1.1.2 # via -r requirements/base.in, goenrichment, seaborn, statsmodels | ||
pandocfilters==1.4.2 # via nbconvert | ||
parso==0.7.1 # via jedi | ||
patsy==0.5.1 # via statsmodels | ||
pdf2image==1.14.0 # via -r requirements/base.in | ||
pexpect==4.8.0 # via ipython | ||
pickleshare==0.7.5 # via ipython | ||
pillow==7.2.0 # via matplotlib, pdf2image | ||
poyo==0.5.0 # via cookiecutter | ||
prometheus-client==0.8.0 # via notebook | ||
prompt-toolkit==3.0.7 # via ipython, jupyter-console | ||
prov==1.5.1 # via cwltool | ||
psutil==5.7.2 # via cwltool | ||
ptyprocess==0.6.0 # via pexpect, terminado | ||
pycparser==2.20 # via cffi | ||
pydot==1.4.1 # via cwltool | ||
pygments==2.7.1 # via ipython, jupyter-console, jupyterlab-pygments, nbconvert, qtconsole | ||
pyparsing==2.4.7 # via matplotlib, packaging, pydot, rdflib | ||
pyrsistent==0.17.3 # via jsonschema | ||
python-dateutil==2.8.1 # via arrow, jupyter-client, matplotlib, pandas, prov | ||
python-slugify==4.0.1 # via cookiecutter | ||
pytz==2020.1 # via pandas | ||
pyyaml==5.3.1 # via -r requirements/base.in, bioconda2biocontainer, galaxy-util | ||
pyzmq==19.0.2 # via jupyter-client, notebook, qtconsole | ||
qtconsole==4.7.7 # via jupyter | ||
qtpy==1.9.0 # via qtconsole | ||
rdflib-jsonld==0.5.0 # via schema-salad | ||
rdflib==4.2.2 # via cwltool, prov, rdflib-jsonld, schema-salad | ||
repoze.lru==0.7 # via routes | ||
requests==2.24.0 # via -r requirements/base.in, bioconda2biocontainer, cachecontrol, cookiecutter, cwltool, docker, galaxy-containers, galaxy-util, schema-salad | ||
routes==2.4.1 # via galaxy-util | ||
ruamel.yaml.clib==0.2.2 # via ruamel.yaml | ||
ruamel.yaml==0.16.5 # via cwltool, schema-salad | ||
schema-salad==7.0.20200811075006 # via cwltool | ||
scipy==1.5.2 # via -r requirements/base.in, goenrichment, seaborn, statsmodels | ||
seaborn==0.11.0 # via -r requirements/base.in | ||
send2trash==1.5.0 # via notebook | ||
shellescape==3.4.1 # via cwltool | ||
six==1.15.0 # via argon2-cffi, bleach, cookiecutter, cycler, docker, galaxy-util, isodate, jsonschema, packaging, patsy, prov, python-dateutil, routes, websocket-client | ||
smmap==3.0.4 # via gitdb | ||
statsmodels==0.12.0 # via -r requirements/base.in, goenrichment | ||
terminado==0.8.3 # via notebook | ||
testpath==0.4.4 # via nbconvert | ||
text-unidecode==1.3 # via python-slugify | ||
tornado==6.0.4 # via ipykernel, jupyter-client, notebook, terminado | ||
traitlets==5.0.4 # via ipykernel, ipython, ipywidgets, jupyter-client, jupyter-core, nbclient, nbconvert, nbformat, notebook, qtconsole | ||
typing-extensions==3.7.4.3 # via cwltool, schema-salad | ||
urllib3==1.25.10 # via -r requirements/base.in, requests | ||
wcwidth==0.2.5 # via prompt-toolkit | ||
webencodings==0.5.1 # via bleach | ||
websocket-client==0.57.0 # via docker | ||
widgetsnbextension==3.5.1 # via ipywidgets | ||
xmltodict==0.12.0 # via -r requirements/base.in | ||
zipp==3.1.0 # via importlib-metadata | ||
|
||
# The following packages are considered to be unsafe in a requirements file: | ||
# setuptools |
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-r base.txt | ||
|
||
pytest | ||
pytest-cov | ||
sphinx-argparse | ||
mock | ||
sphinx-rtd-theme | ||
|
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Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -1,4 +1,33 @@ | ||
# SHA1:6d4c9a6ffab8b2fa46a52aa17b0c622b8bdf93cd | ||
# | ||
# This file is autogenerated by pip-compile-multi | ||
# To update, run: | ||
# | ||
# pip-compile-multi | ||
# | ||
-r base.txt | ||
alabaster==0.7.12 # via sphinx | ||
babel==2.8.0 # via sphinx | ||
coverage==5.3 # via pytest-cov | ||
imagesize==1.2.0 # via sphinx | ||
iniconfig==1.0.1 # via pytest | ||
mock==4.0.2 # via -r requirements/test.in | ||
more-itertools==8.5.0 # via pytest | ||
pluggy==0.13.1 # via pytest | ||
py==1.9.0 # via pytest | ||
pytest-cov==2.10.1 # via -r requirements/test.in | ||
pytest==6.0.2 # via -r requirements/test.in, pytest-cov | ||
snowballstemmer==2.0.0 # via sphinx | ||
sphinx-argparse==0.2.5 # via -r requirements/test.in | ||
sphinx-rtd-theme==0.5.0 # via -r requirements/test.in | ||
sphinx==3.2.1 # via sphinx-argparse, sphinx-rtd-theme | ||
sphinxcontrib-applehelp==1.0.2 # via sphinx | ||
sphinxcontrib-devhelp==1.0.2 # via sphinx | ||
sphinxcontrib-htmlhelp==1.0.3 # via sphinx | ||
sphinxcontrib-jsmath==1.0.1 # via sphinx | ||
sphinxcontrib-qthelp==1.0.3 # via sphinx | ||
sphinxcontrib-serializinghtml==1.1.4 # via sphinx | ||
toml==0.10.1 # via pytest | ||
|
||
pytest~=3.7 | ||
pytest-cov~=2.5 | ||
# The following packages are considered to be unsafe in a requirements file: | ||
# setuptools |
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