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Update env file to Py 3.9
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vinisalazar committed Jan 8, 2021
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1 change: 1 addition & 0 deletions CHANGELOG.md
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* Add sequence dunder methods for Project class [x]
* Improve run methods [x]
* Allow specifying sequence format to PresetProgram outputs [x]
* Update env file to Py 3.9 [x]

### v0.1.21
* Add _config argument to `bp.load_project()` (this is a temporary fix) [x]
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232 changes: 107 additions & 125 deletions environment.yml
@@ -1,146 +1,128 @@
name: bioprov
name: bioprov-dev
channels:
- salilab
- conda-forge
- bioconda
- defaults
dependencies:
- _libgcc_mutex=0.1
- _openmp_mutex=4.5
- argon2-cffi=20.1.0
- async_generator=1.10
- attrs=20.2.0
- backports=1.0
- backports.functools_lru_cache=1.6.1
- bleach=3.2.1
- brotlipy=0.7.0
- ca-certificates=2020.6.20
- certifi=2020.6.20
- cffi=1.14.3
- chardet=3.0.4
- cryptography=3.1.1
- decorator=4.4.2
- defusedxml=0.6.0
- entrypoints=0.3
- idna=2.10
- importlib-metadata=2.0.0
- importlib_metadata=2.0.0
- ipykernel=5.3.4
- ipython=5.8.0
- ipython_genutils=0.2.0
- jinja2=2.11.2
- json5=0.9.5
- jsonschema=3.2.0
- jupyter_client=6.1.7
- jupyter_core=4.6.3
- jupyterlab=2.2.8
- jupyterlab_pygments=0.1.2
- jupyterlab_server=1.2.0
- ld_impl_linux-64=2.35
- libcxx=11.0.0
- libcxxabi=11.0.0
- libffi=3.2.1
- libgcc-ng=9.3.0
- libgomp=9.3.0
- libsodium=1.0.18
- libstdcxx-ng=9.3.0
- markupsafe=1.1.1
- mistune=0.8.4
- nb_conda_kernels=2.3.0
- nbclient=0.5.1
- nbconvert=6.0.7
- nbformat=5.0.8
- ncurses=6.2
- nest-asyncio=1.4.1
- notebook=6.1.4
- openssl=1.1.1h
- packaging=20.4
- pandoc=2.11.0.2
- pandocfilters=1.4.2
- pexpect=4.8.0
- pickleshare=0.7.5
- pip=20.2.3
- prodigal=2.6.3
- prometheus_client=0.8.0
- prompt_toolkit=1.0.15
- ptyprocess=0.6.0
- pycparser=2.20
- pygments=2.7.1
- pyopenssl=19.1.0
- pyparsing=2.4.7
- pyrsistent=0.17.3
- pysocks=1.7.1
- python=3.7.8
- python-dateutil=2.8.1
- python_abi=3.7
- pyzmq=19.0.2
- readline=8.0
- requests=2.24.0
- send2trash=1.5.0
- setuptools=49.6.0
- simplegeneric=0.8.1
- six=1.15.0
- sqlite=3.33.0
- terminado=0.9.1
- testpath=0.4.4
- tk=8.6.10
- tornado=6.0.4
- traitlets=5.0.5
- urllib3=1.25.10
- wcwidth=0.2.5
- webencodings=0.5.1
- wheel=0.35.1
- xz=5.2.5
- zeromq=4.3.3
- zipp=3.3.1
- zlib=1.2.11
- attrs=20.3.0=pyhd3deb0d_0
- bioprov=0.1.20=pyh3252c3a_0
- biopython=1.78=py39h4059872_1
- brotlipy=0.7.0=py39h66d5b7b_1001
- ca-certificates=2020.12.5=h033912b_0
- certifi=2020.12.5=py39h6e9494a_1
- cffi=1.14.4=py39h7786acb_1
- chardet=4.0.0=py39h6e9494a_1
- coolname=1.1.0=py39h6e9494a_2
- coverage=5.3.1=py39hcbf5805_1
- coveralls=2.2.0=pyhd8ed1ab_0
- cryptography=3.3.1=py39h79a2c39_0
- dataclasses=0.7=pyhb2cacf7_7
- decorator=4.4.2=py_0
- docopt=0.6.2=py_1
- freetype=2.10.4=h3f75d11_0
- graphviz=2.42.3=h98dfb87_0
- html5lib=1.1=pyh9f0ad1d_0
- icu=68.1=h74dc148_0
- idna=2.10=pyh9f0ad1d_0
- iniconfig=1.1.1=pyh9f0ad1d_0
- ipython_genutils=0.2.0=py_1
- isodate=0.6.0=py_1
- jpeg=9d=hbcb3906_0
- jupyter_client=6.1.7=py_0
- jupyter_core=4.7.0=py39h6e9494a_0
- keepalive=0.5=py39h6e9494a_5
- libblas=3.9.0=7_openblas
- libcblas=3.9.0=7_openblas
- libcxx=11.0.0=h4c3b8ed_1
- libffi=3.3=h046ec9c_2
- libgfortran=5.0.0=h6c81a4c_15
- libgfortran5=9.3.0=h6c81a4c_15
- libiconv=1.16=haf1e3a3_0
- liblapack=3.9.0=7_openblas
- libopenblas=0.3.12=openmp_h54245bb_1
- libpng=1.6.37=h7cec526_2
- libsodium=1.0.18=hbcb3906_1
- libtiff=4.2.0=h355d032_0
- libwebp-base=1.1.0=hbcb3906_3
- libxml2=2.9.10=h802ca4f_3
- libxslt=1.1.33=h5739fc3_2
- llvm-openmp=11.0.0=h73239a0_1
- lxml=4.6.2=py39h9e3495c_0
- lz4-c=1.9.3=h046ec9c_0
- more-itertools=8.6.0=pyhd8ed1ab_0
- nb_conda_kernels=2.3.1=py39h6e9494a_0
- ncurses=6.2=h2e338ed_4
- networkx=2.5=py_0
- numpy=1.19.5=py39he588a01_0
- openssl=1.1.1i=h35c211d_0
- packaging=20.8=pyhd3deb0d_0
- pandas=1.2.0=py39h089d6f7_0
- pip=20.3.3=pyhd8ed1ab_0
- pluggy=0.13.1=py39h2c36a5b_3
- prodigal=2.6.3=h01d97ff_2
- prov=2.0.0=pyhd3deb0d_0
- provstore-api=0.1.3=py39h6e9494a_2
- py=1.10.0=pyhd3deb0d_0
- pycparser=2.20=pyh9f0ad1d_2
- pydot=1.4.1=py39h6e9494a_1003
- pyopenssl=20.0.1=pyhd8ed1ab_0
- pyparsing=2.4.7=pyh9f0ad1d_0
- pysocks=1.7.1=py39h2c36a5b_2
- pytest=6.2.1=py39h6e9494a_0
- pytest-cov=2.10.1=pyh9f0ad1d_0
- python=3.9.1=h1d169a7_2_cpython
- python-dateutil=2.8.1=py_0
- python_abi=3.9=1_cp39
- pytz=2020.5=pyhd8ed1ab_0
- pyyaml=5.3.1=py39h66d5b7b_1
- pyzmq=20.0.0=py39h07c395c_1
- rdflib=5.0.0=py39hde42818_3
- readline=8.0=h0678c8f_2
- requests=2.25.1=pyhd3deb0d_0
- setuptools=49.6.0=py39h6e9494a_3
- six=1.15.0=pyh9f0ad1d_0
- sparqlwrapper=1.8.5=py39h6e9494a_1005
- sqlite=3.34.0=h17101e1_0
- tinydb=4.3.0=pyhd3deb0d_0
- tk=8.6.10=h0419947_1
- toml=0.10.2=pyhd8ed1ab_0
- tornado=6.1=py39hcbf5805_1
- tqdm=4.55.1=pyhd8ed1ab_0
- traitlets=5.0.5=py_0
- tzdata=2020f=he74cb21_0
- urllib3=1.26.2=pyhd8ed1ab_0
- webencodings=0.5.1=py_1
- wheel=0.36.2=pyhd3deb0d_0
- xz=5.2.5=haf1e3a3_1
- yaml=0.2.5=haf1e3a3_0
- zeromq=4.3.3=h74dc148_3
- zlib=1.2.11=h7795811_1010
- zstd=1.4.8=hf387650_1
- pip:
- alabaster==0.7.12
- appdirs==1.4.4
- babel==2.8.0
- bioprov==0.1.13
- biopython==1.78
- babel==2.9.0
- black==20.8b1
- click==7.1.2
- coolname==1.1.0
- coverage==5.3
- coveralls==2.1.2
- dataclasses==0.6
- docopt==0.6.2
- docutils==0.16
- imagesize==1.2.0
- iniconfig==1.1.1
- isodate==0.6.0
- lxml==4.5.2
- markdown-it-py==0.5.5
- jinja2==2.11.2
- markdown-it-py==0.6.1
- markupsafe==1.1.1
- mdit-py-plugins==0.2.4
- mypy-extensions==0.4.3
- myst-parser==0.12.10
- networkx==2.5
- numpy==1.19.2
- pandas==1.1.3
- pathspec==0.8.0
- pluggy==0.13.1
- prov==1.5.3
- provstore-api==0.1.3
- py==1.9.0
- pydot==1.4.1
- pytest==6.1.1
- pytest-cov==2.10.1
- pytz==2020.1
- pyyaml==5.3.1
- rdflib==5.0.0
- regex==2020.10.15
- myst-parser==0.13.1
- pathspec==0.8.1
- pygments==2.7.3
- regex==2020.11.13
- snowballstemmer==2.0.0
- sphinx==3.2.1
- sphinx-rtd-theme==0.5.0
- sphinx==3.4.3
- sphinxcontrib-applehelp==1.0.2
- sphinxcontrib-devhelp==1.0.2
- sphinxcontrib-htmlhelp==1.0.3
- sphinxcontrib-jsmath==1.0.1
- sphinxcontrib-qthelp==1.0.3
- sphinxcontrib-serializinghtml==1.1.4
- tinydb==4.2.0
- toml==0.10.1
- tqdm==4.50.2
- typed-ast==1.4.1
- typed-ast==1.4.2
- typing-extensions==3.7.4.3
prefix: /Users/vini/anaconda3/envs/new-bp-env

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