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authorCoprDistGit <infra@openeuler.org>2023-05-31 07:56:11 +0000
committerCoprDistGit <infra@openeuler.org>2023-05-31 07:56:11 +0000
commit222f3c7ec38069826a882d3ccdcdb3b982655f87 (patch)
tree6eb6f9a0c2e2cc463fd2ed3f906be5a5807146c4
parent3e278eb93e8e8b099e6fa4cf60fc7e2d6b49c1b3 (diff)
automatic import of python-arv
-rw-r--r--.gitignore1
-rw-r--r--python-arv.spec130
-rw-r--r--sources1
3 files changed, 132 insertions, 0 deletions
diff --git a/.gitignore b/.gitignore
index e69de29..5c9c944 100644
--- a/.gitignore
+++ b/.gitignore
@@ -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
diff --git a/sources b/sources
new file mode 100644
index 0000000..6f0414e
--- /dev/null
+++ b/sources
@@ -0,0 +1 @@
+4fc097509e53e4cf5928891cf159a611 arv-0.9.2.tar.gz