From 31e8f0159510b5421dbcb02a59a36092506dd03d Mon Sep 17 00:00:00 2001 From: CoprDistGit Date: Wed, 31 May 2023 08:06:33 +0000 Subject: automatic import of python-biomass --- .gitignore | 1 + python-biomass.spec | 240 ++++++++++++++++++++++++++++++++++++++++++++++++++++ sources | 1 + 3 files changed, 242 insertions(+) create mode 100644 python-biomass.spec create mode 100644 sources diff --git a/.gitignore b/.gitignore index e69de29..e7f4c1e 100644 --- a/.gitignore +++ b/.gitignore @@ -0,0 +1 @@ +/biomass-0.12.0.tar.gz diff --git a/python-biomass.spec b/python-biomass.spec new file mode 100644 index 0000000..7abe8fa --- /dev/null +++ b/python-biomass.spec @@ -0,0 +1,240 @@ +%global _empty_manifest_terminate_build 0 +Name: python-biomass +Version: 0.12.0 +Release: 1 +Summary: A Python Framework for Modeling and Analysis of Signaling Systems +License: Apache-2.0 +URL: https://pypi.org/project/biomass/ +Source0: https://mirrors.nju.edu.cn/pypi/web/packages/4f/07/1dc5ae8a39bba186d1b272f2432e0e08b6ee8b58950995961609334556c0/biomass-0.12.0.tar.gz +BuildArch: noarch + +Requires: python3-matplotlib +Requires: python3-numba +Requires: python3-numpy +Requires: python3-pandas +Requires: python3-scipy +Requires: python3-seaborn +Requires: python3-tqdm +Requires: python3-black +Requires: python3-flake8 +Requires: python3-isort +Requires: python3-pre-commit +Requires: python3-pytest +Requires: python3-sphinx +Requires: python3-sphinx-rtd-theme +Requires: python3-sphinx-autodoc-typehints +Requires: python3-sphinxcontrib-bibtex +Requires: python3-pygraphviz +Requires: python3-pyvis + +%description +
+

+ + + +

+ +[![PyPI version](https://img.shields.io/pypi/v/biomass.svg?logo=PyPI&logoColor=white)](https://pypi.python.org/pypi/biomass) +[![Actions Status](https://github.com/biomass-dev/biomass/workflows/Tests/badge.svg)](https://github.com/biomass-dev/biomass/actions) +[![Documentation Status](https://img.shields.io/readthedocs/biomass-core/latest.svg?logo=read%20the%20docs&logoColor=white&&label=Docs&version=latest)](https://biomass-core.readthedocs.io/en/latest/?badge=latest) +[![License](https://img.shields.io/badge/License-Apache%202.0-green.svg?logo=apache)](https://opensource.org/licenses/Apache-2.0) +[![Downloads](https://pepy.tech/badge/biomass)](https://pepy.tech/project/biomass) +[![PyPI pyversions](https://img.shields.io/pypi/pyversions/biomass.svg?logo=Python&logoColor=white)](https://pypi.python.org/pypi/biomass) +[![pre-commit.ci status](https://results.pre-commit.ci/badge/github/biomass-dev/biomass/master.svg)](https://results.pre-commit.ci/latest/github/biomass-dev/biomass/master) +[![Code style: black](https://img.shields.io/badge/code%20style-black-000000.svg)](https://github.com/psf/black) +[![Imports: isort](https://img.shields.io/badge/%20imports-isort-%231674b1?style=flat&labelColor=ef8336)](https://pycqa.github.io/isort/) +[![Cancers Paper](https://img.shields.io/badge/DOI-10.3390%2Fcancers12102878-blue)](https://doi.org/10.3390/cancers12102878) + +_BioMASS_ is a computational framework for modeling and analysis of biological signaling systems in Python. + +- **Documentation:** https://biomass-core.rtfd.io +- **Source code:** https://github.com/biomass-dev/biomass +- **Bug reports:** https://github.com/biomass-dev/biomass/issues +- **Citing in your work:** https://biomass-core.rtfd.io/en/latest/citing.html + +It provides useful tools for numerical simulation, parameter estimation, network analysis, and result visualization. + +## Installation + +The BioMASS library is available at the [Python Package Index (PyPI)](https://pypi.org/project/biomass). + +```shell +$ pip install biomass +``` + +BioMASS supports Python 3.8 or newer. + +## References + +- Imoto, H., Zhang, S. & Okada, M. A Computational Framework for Prediction and Analysis of Cancer Signaling Dynamics from RNA Sequencing Data—Application to the ErbB Receptor Signaling Pathway. _Cancers_ **12**, 2878 (2020). https://doi.org/10.3390/cancers12102878 + +- Imoto, H., Yamashiro, S. & Okada, M. A text-based computational framework for patient -specific modeling for classification of cancers. _iScience_ **25**, 103944 (2022). https://doi.org/10.1016/j.isci.2022.103944 + +## Author + +[Hiroaki Imoto](https://github.com/himoto) + +## License + +[Apache License 2.0](https://github.com/biomass-dev/biomass/blob/master/LICENSE) + + +%package -n python3-biomass +Summary: A Python Framework for Modeling and Analysis of Signaling Systems +Provides: python-biomass +BuildRequires: python3-devel +BuildRequires: python3-setuptools +BuildRequires: python3-pip +%description -n python3-biomass +
+

+ + + +

+ +[![PyPI version](https://img.shields.io/pypi/v/biomass.svg?logo=PyPI&logoColor=white)](https://pypi.python.org/pypi/biomass) +[![Actions Status](https://github.com/biomass-dev/biomass/workflows/Tests/badge.svg)](https://github.com/biomass-dev/biomass/actions) +[![Documentation Status](https://img.shields.io/readthedocs/biomass-core/latest.svg?logo=read%20the%20docs&logoColor=white&&label=Docs&version=latest)](https://biomass-core.readthedocs.io/en/latest/?badge=latest) +[![License](https://img.shields.io/badge/License-Apache%202.0-green.svg?logo=apache)](https://opensource.org/licenses/Apache-2.0) +[![Downloads](https://pepy.tech/badge/biomass)](https://pepy.tech/project/biomass) +[![PyPI pyversions](https://img.shields.io/pypi/pyversions/biomass.svg?logo=Python&logoColor=white)](https://pypi.python.org/pypi/biomass) +[![pre-commit.ci status](https://results.pre-commit.ci/badge/github/biomass-dev/biomass/master.svg)](https://results.pre-commit.ci/latest/github/biomass-dev/biomass/master) +[![Code style: black](https://img.shields.io/badge/code%20style-black-000000.svg)](https://github.com/psf/black) +[![Imports: isort](https://img.shields.io/badge/%20imports-isort-%231674b1?style=flat&labelColor=ef8336)](https://pycqa.github.io/isort/) +[![Cancers Paper](https://img.shields.io/badge/DOI-10.3390%2Fcancers12102878-blue)](https://doi.org/10.3390/cancers12102878) + +_BioMASS_ is a computational framework for modeling and analysis of biological signaling systems in Python. + +- **Documentation:** https://biomass-core.rtfd.io +- **Source code:** https://github.com/biomass-dev/biomass +- **Bug reports:** https://github.com/biomass-dev/biomass/issues +- **Citing in your work:** https://biomass-core.rtfd.io/en/latest/citing.html + +It provides useful tools for numerical simulation, parameter estimation, network analysis, and result visualization. + +## Installation + +The BioMASS library is available at the [Python Package Index (PyPI)](https://pypi.org/project/biomass). + +```shell +$ pip install biomass +``` + +BioMASS supports Python 3.8 or newer. + +## References + +- Imoto, H., Zhang, S. & Okada, M. A Computational Framework for Prediction and Analysis of Cancer Signaling Dynamics from RNA Sequencing Data—Application to the ErbB Receptor Signaling Pathway. _Cancers_ **12**, 2878 (2020). https://doi.org/10.3390/cancers12102878 + +- Imoto, H., Yamashiro, S. & Okada, M. A text-based computational framework for patient -specific modeling for classification of cancers. _iScience_ **25**, 103944 (2022). https://doi.org/10.1016/j.isci.2022.103944 + +## Author + +[Hiroaki Imoto](https://github.com/himoto) + +## License + +[Apache License 2.0](https://github.com/biomass-dev/biomass/blob/master/LICENSE) + + +%package help +Summary: Development documents and examples for biomass +Provides: python3-biomass-doc +%description help +
+

+ + + +

+ +[![PyPI version](https://img.shields.io/pypi/v/biomass.svg?logo=PyPI&logoColor=white)](https://pypi.python.org/pypi/biomass) +[![Actions Status](https://github.com/biomass-dev/biomass/workflows/Tests/badge.svg)](https://github.com/biomass-dev/biomass/actions) +[![Documentation Status](https://img.shields.io/readthedocs/biomass-core/latest.svg?logo=read%20the%20docs&logoColor=white&&label=Docs&version=latest)](https://biomass-core.readthedocs.io/en/latest/?badge=latest) +[![License](https://img.shields.io/badge/License-Apache%202.0-green.svg?logo=apache)](https://opensource.org/licenses/Apache-2.0) +[![Downloads](https://pepy.tech/badge/biomass)](https://pepy.tech/project/biomass) +[![PyPI pyversions](https://img.shields.io/pypi/pyversions/biomass.svg?logo=Python&logoColor=white)](https://pypi.python.org/pypi/biomass) +[![pre-commit.ci status](https://results.pre-commit.ci/badge/github/biomass-dev/biomass/master.svg)](https://results.pre-commit.ci/latest/github/biomass-dev/biomass/master) +[![Code style: black](https://img.shields.io/badge/code%20style-black-000000.svg)](https://github.com/psf/black) +[![Imports: isort](https://img.shields.io/badge/%20imports-isort-%231674b1?style=flat&labelColor=ef8336)](https://pycqa.github.io/isort/) +[![Cancers Paper](https://img.shields.io/badge/DOI-10.3390%2Fcancers12102878-blue)](https://doi.org/10.3390/cancers12102878) + +_BioMASS_ is a computational framework for modeling and analysis of biological signaling systems in Python. + +- **Documentation:** https://biomass-core.rtfd.io +- **Source code:** https://github.com/biomass-dev/biomass +- **Bug reports:** https://github.com/biomass-dev/biomass/issues +- **Citing in your work:** https://biomass-core.rtfd.io/en/latest/citing.html + +It provides useful tools for numerical simulation, parameter estimation, network analysis, and result visualization. + +## Installation + +The BioMASS library is available at the [Python Package Index (PyPI)](https://pypi.org/project/biomass). + +```shell +$ pip install biomass +``` + +BioMASS supports Python 3.8 or newer. + +## References + +- Imoto, H., Zhang, S. & Okada, M. A Computational Framework for Prediction and Analysis of Cancer Signaling Dynamics from RNA Sequencing Data—Application to the ErbB Receptor Signaling Pathway. _Cancers_ **12**, 2878 (2020). https://doi.org/10.3390/cancers12102878 + +- Imoto, H., Yamashiro, S. & Okada, M. A text-based computational framework for patient -specific modeling for classification of cancers. _iScience_ **25**, 103944 (2022). https://doi.org/10.1016/j.isci.2022.103944 + +## Author + +[Hiroaki Imoto](https://github.com/himoto) + +## License + +[Apache License 2.0](https://github.com/biomass-dev/biomass/blob/master/LICENSE) + + +%prep +%autosetup -n biomass-0.12.0 + +%build +%py3_build + +%install +%py3_install +install -d -m755 %{buildroot}/%{_pkgdocdir} +if [ -d doc ]; then cp -arf doc %{buildroot}/%{_pkgdocdir}; fi +if [ -d docs ]; then cp -arf docs %{buildroot}/%{_pkgdocdir}; fi +if [ -d example ]; then cp -arf example %{buildroot}/%{_pkgdocdir}; fi +if [ -d examples ]; then cp -arf examples %{buildroot}/%{_pkgdocdir}; fi +pushd %{buildroot} +if [ -d usr/lib ]; then + find usr/lib -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/lib64 ]; then + find usr/lib64 -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/bin ]; then + find usr/bin -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/sbin ]; then + find usr/sbin -type f -printf "/%h/%f\n" >> filelist.lst +fi +touch doclist.lst +if [ -d usr/share/man ]; then + find usr/share/man -type f -printf "/%h/%f.gz\n" >> doclist.lst +fi +popd +mv %{buildroot}/filelist.lst . +mv %{buildroot}/doclist.lst . + +%files -n python3-biomass -f filelist.lst +%dir %{python3_sitelib}/* + +%files help -f doclist.lst +%{_docdir}/* + +%changelog +* Wed May 31 2023 Python_Bot - 0.12.0-1 +- Package Spec generated diff --git a/sources b/sources new file mode 100644 index 0000000..58537e7 --- /dev/null +++ b/sources @@ -0,0 +1 @@ +a0e5e1b53ca52f42d6fbcc0ee2a40483 biomass-0.12.0.tar.gz -- cgit v1.2.3