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author | CoprDistGit <infra@openeuler.org> | 2023-05-31 07:56:11 +0000 |
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committer | CoprDistGit <infra@openeuler.org> | 2023-05-31 07:56:11 +0000 |
commit | 222f3c7ec38069826a882d3ccdcdb3b982655f87 (patch) | |
tree | 6eb6f9a0c2e2cc463fd2ed3f906be5a5807146c4 | |
parent | 3e278eb93e8e8b099e6fa4cf60fc7e2d6b49c1b3 (diff) |
automatic import of python-arv
-rw-r--r-- | .gitignore | 1 | ||||
-rw-r--r-- | python-arv.spec | 130 | ||||
-rw-r--r-- | sources | 1 |
3 files changed, 132 insertions, 0 deletions
@@ -0,0 +1 @@ +/arv-0.9.2.tar.gz diff --git a/python-arv.spec b/python-arv.spec new file mode 100644 index 0000000..109870d --- /dev/null +++ b/python-arv.spec @@ -0,0 +1,130 @@ +%global _empty_manifest_terminate_build 0 +Name: python-arv +Version: 0.9.2 +Release: 1 +Summary: A fast 23andMe raw genome file parser +License: https://www.gnu.org/licenses/gpl-3.0.html +URL: https://github.com/cslarsen/arv +Source0: https://mirrors.nju.edu.cn/pypi/web/packages/c2/6a/7198d7adcb9e5f90080c5f2e0bd9dced045f174dd809267b626278995b67/arv-0.9.2.tar.gz +BuildArch: noarch + +Requires: python3-cython + +%description +|travis-status| |versions| |license| |pypi| +Arv (Norwegian; "heritage" or "inheritance") is a Python module for parsing raw +23andMe genome files. It lets you lookup SNPs from RSIDs. + from arv import load, unphased_match as match + genome = load("genome.txt") + print("You are a {gender} with {color} eyes and {complexion} skin.".format( + gender = "man" if genome.y_chromosome else "woman", + complexion = "light" if genome["rs1426654"] == "AA" else "dark", + color = match(genome["rs12913832"], {"AA": "brown", + "AG": "brown or green", + "GG": "blue"}))) +For my genome, this little program produces:: + You are a man with blue eyes and light skin. +The parser is insanely fast, having been written in finely tuned C++, exposed +via Cython. A 2013 Xeon machine I've tested on parses a 24 Mb file into a hash +table in about 78 ms. The newer 23andMe files are smaller, and parses in a mere +62 ms! +Works with Python 2.7+ and 3+. Installable with pip! + $ pip install --upgrade arv +See below for software requirements. + +%package -n python3-arv +Summary: A fast 23andMe raw genome file parser +Provides: python-arv +BuildRequires: python3-devel +BuildRequires: python3-setuptools +BuildRequires: python3-pip +%description -n python3-arv +|travis-status| |versions| |license| |pypi| +Arv (Norwegian; "heritage" or "inheritance") is a Python module for parsing raw +23andMe genome files. It lets you lookup SNPs from RSIDs. + from arv import load, unphased_match as match + genome = load("genome.txt") + print("You are a {gender} with {color} eyes and {complexion} skin.".format( + gender = "man" if genome.y_chromosome else "woman", + complexion = "light" if genome["rs1426654"] == "AA" else "dark", + color = match(genome["rs12913832"], {"AA": "brown", + "AG": "brown or green", + "GG": "blue"}))) +For my genome, this little program produces:: + You are a man with blue eyes and light skin. +The parser is insanely fast, having been written in finely tuned C++, exposed +via Cython. A 2013 Xeon machine I've tested on parses a 24 Mb file into a hash +table in about 78 ms. The newer 23andMe files are smaller, and parses in a mere +62 ms! +Works with Python 2.7+ and 3+. Installable with pip! + $ pip install --upgrade arv +See below for software requirements. + +%package help +Summary: Development documents and examples for arv +Provides: python3-arv-doc +%description help +|travis-status| |versions| |license| |pypi| +Arv (Norwegian; "heritage" or "inheritance") is a Python module for parsing raw +23andMe genome files. It lets you lookup SNPs from RSIDs. + from arv import load, unphased_match as match + genome = load("genome.txt") + print("You are a {gender} with {color} eyes and {complexion} skin.".format( + gender = "man" if genome.y_chromosome else "woman", + complexion = "light" if genome["rs1426654"] == "AA" else "dark", + color = match(genome["rs12913832"], {"AA": "brown", + "AG": "brown or green", + "GG": "blue"}))) +For my genome, this little program produces:: + You are a man with blue eyes and light skin. +The parser is insanely fast, having been written in finely tuned C++, exposed +via Cython. A 2013 Xeon machine I've tested on parses a 24 Mb file into a hash +table in about 78 ms. The newer 23andMe files are smaller, and parses in a mere +62 ms! +Works with Python 2.7+ and 3+. Installable with pip! + $ pip install --upgrade arv +See below for software requirements. + +%prep +%autosetup -n arv-0.9.2 + +%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-arv -f filelist.lst +%dir %{python3_sitelib}/* + +%files help -f doclist.lst +%{_docdir}/* + +%changelog +* Wed May 31 2023 Python_Bot <Python_Bot@openeuler.org> - 0.9.2-1 +- Package Spec generated @@ -0,0 +1 @@ +4fc097509e53e4cf5928891cf159a611 arv-0.9.2.tar.gz |