%global _empty_manifest_terminate_build 0 Name: python-cyvcf2 Version: 0.30.18 Release: 1 Summary: fast vcf parsing with cython + htslib License: MIT URL: https://github.com/brentp/cyvcf2/ Source0: https://mirrors.nju.edu.cn/pypi/web/packages/8e/b1/31b20c3453944fda0eb43d519787bcce4178b6f3b29c94a6286a801fbad3/cyvcf2-0.30.18.tar.gz BuildArch: noarch Requires: python3-numpy Requires: python3-coloredlogs Requires: python3-click %description Note: cyvcf2 versions < 0.20.0 require htslib < 1.10. cyvcf2 versions >= 0.20.0 require htslib >= 1.10 The latest documentation for cyvcf2 can be found here: [![Docs](https://img.shields.io/badge/docs-latest-blue.svg)](http://brentp.github.io/cyvcf2/) If you use cyvcf2, please cite the [paper](https://academic.oup.com/bioinformatics/article/2971439/cyvcf2) Fast python **(2 and 3)** parsing of VCF and BCF including region-queries. [![Build Status](https://github.com/brentp/cyvcf2/workflows/Build/badge.svg)](https://github.com/brentp/cyvcf2/actions?query=workflow%3ABuild) cyvcf2 is a cython wrapper around [htslib](https://github.com/samtools/htslib) built for fast parsing of [Variant Call Format](https://en.m.wikipedia.org/wiki/Variant_Call_Format) (VCF) files. Attributes like `variant.gt_ref_depths` return a numpy array directly so they are immediately ready for downstream use. **note** that the array is backed by the underlying C data, so, once `variant` goes out of scope. The array will contain nonsense. To persist a copy, use: `cpy = np.array(variant.gt_ref_depths)` instead of just `arr = variant.gt_ref_depths`. %package -n python3-cyvcf2 Summary: fast vcf parsing with cython + htslib Provides: python-cyvcf2 BuildRequires: python3-devel BuildRequires: python3-setuptools BuildRequires: python3-pip %description -n python3-cyvcf2 Note: cyvcf2 versions < 0.20.0 require htslib < 1.10. cyvcf2 versions >= 0.20.0 require htslib >= 1.10 The latest documentation for cyvcf2 can be found here: [![Docs](https://img.shields.io/badge/docs-latest-blue.svg)](http://brentp.github.io/cyvcf2/) If you use cyvcf2, please cite the [paper](https://academic.oup.com/bioinformatics/article/2971439/cyvcf2) Fast python **(2 and 3)** parsing of VCF and BCF including region-queries. [![Build Status](https://github.com/brentp/cyvcf2/workflows/Build/badge.svg)](https://github.com/brentp/cyvcf2/actions?query=workflow%3ABuild) cyvcf2 is a cython wrapper around [htslib](https://github.com/samtools/htslib) built for fast parsing of [Variant Call Format](https://en.m.wikipedia.org/wiki/Variant_Call_Format) (VCF) files. Attributes like `variant.gt_ref_depths` return a numpy array directly so they are immediately ready for downstream use. **note** that the array is backed by the underlying C data, so, once `variant` goes out of scope. The array will contain nonsense. To persist a copy, use: `cpy = np.array(variant.gt_ref_depths)` instead of just `arr = variant.gt_ref_depths`. %package help Summary: Development documents and examples for cyvcf2 Provides: python3-cyvcf2-doc %description help Note: cyvcf2 versions < 0.20.0 require htslib < 1.10. cyvcf2 versions >= 0.20.0 require htslib >= 1.10 The latest documentation for cyvcf2 can be found here: [![Docs](https://img.shields.io/badge/docs-latest-blue.svg)](http://brentp.github.io/cyvcf2/) If you use cyvcf2, please cite the [paper](https://academic.oup.com/bioinformatics/article/2971439/cyvcf2) Fast python **(2 and 3)** parsing of VCF and BCF including region-queries. [![Build Status](https://github.com/brentp/cyvcf2/workflows/Build/badge.svg)](https://github.com/brentp/cyvcf2/actions?query=workflow%3ABuild) cyvcf2 is a cython wrapper around [htslib](https://github.com/samtools/htslib) built for fast parsing of [Variant Call Format](https://en.m.wikipedia.org/wiki/Variant_Call_Format) (VCF) files. Attributes like `variant.gt_ref_depths` return a numpy array directly so they are immediately ready for downstream use. **note** that the array is backed by the underlying C data, so, once `variant` goes out of scope. The array will contain nonsense. To persist a copy, use: `cpy = np.array(variant.gt_ref_depths)` instead of just `arr = variant.gt_ref_depths`. %prep %autosetup -n cyvcf2-0.30.18 %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-cyvcf2 -f filelist.lst %dir %{python3_sitelib}/* %files help -f doclist.lst %{_docdir}/* %changelog * Mon Apr 10 2023 Python_Bot - 0.30.18-1 - Package Spec generated