Name: plink
Summary: Whole genome data analysis toolset
Version: 1.07
Release: 1
License: GPL
Group: Applications/Engineering
URL: http://pngu.mgh.harvard.edu/~purcell/plink/
Description: PLINK is a free, open-source whole genome association analysis toolset,
designed to perform a range of basic, large-scale analyses in a computationally
efficient manner.
The focus of PLINK is purely on analysis of genotype/phenotype data, so there is no support for steps prior to this (e.g. study design and planning, generating genotype or CNV calls from raw data). Through integration with gPLINK and Haploview, there is some support for the subsequent visualization, annotation and storage of results.
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# $Id$ # Authority: shuff # Upstream: Shaun Purcell <plink$chgr,mgh,harvard,edu> # ExcludeDist: el3 el4 Summary: Whole genome data analysis toolset Name: plink Version: 1.07 Release: 1%{?dist} License: GPL Group: Applications/Engineering URL: http://pngu.mgh.harvard.edu/~purcell/plink/ Source: http://pngu.mgh.harvard.edu/~purcell/plink/dist/plink-%{version}-src.zip BuildRoot: %{_tmppath}/%{name}-%{version}-%{release}-root BuildRequires: binutils BuildRequires: gcc-c++ >= 4.1 BuildRequires: gcc-gfortran >= 4.1 BuildRequires: lapack-devel >= 3 BuildRequires: make BuildRequires: zlib-devel BuildRequires: rpm-macros-rpmforge %description PLINK is a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner. The focus of PLINK is purely on analysis of genotype/phenotype data, so there is no support for steps prior to this (e.g. study design and planning, generating genotype or CNV calls from raw data). Through integration with gPLINK and Haploview, there is some support for the subsequent visualization, annotation and storage of results. %package -n gplink Summary: Java GUI for PLINK Group: Applications/Engineering Requires: %{name} = %{version}-%{release} Requires: jre >= 1.5 %description -n gplink gPLINK is a freely-available, Java-based software package that: * is a GUI that allows construction of many common PLINK operations * provides a simple project management tool and analysis log * allows for data and computation to be on a separate server (via SSH) * facilitates integration with Haploview %prep %setup -n %{name}-%{version}-src %build # set build options perl -pi -e 's|^WITH_WEBCHECK = 1*$|WITH_WEBCHECK = |;' Makefile perl -pi -e 's|^WITH_ZLIB = *$|WITH_ZLIB = 1|;' Makefile perl -pi -e 's|^WITH_LAPACK = *$|WITH_LAPACK = 1|;' Makefile perl -pi -e 's|^FORCE_DYNAMIC = *$|FORCE_DYNAMIC = 1|;' Makefile perl -pi -e 's|^LIB_LAPACK = /usr/lib/liblapack.so.3$|LIB_LAPACK = %{_libdir}/liblapack.so.3|;' Makefile %{__make} %{?_smp_mflags} # make a gplink install script %{__cat} <<GPLINK > gplink #!/bin/sh %{_bindir}/java -jar %{_datadir}/gplink/gPLINK.jar >/dev/null 2>&1 & GPLINK %install %{__rm} -rf %{buildroot} %{__install} -d -m0755 %{buildroot}%{_bindir} %{__install} -m0755 plink %{buildroot}%{_bindir} %{__install} -m0755 gplink %{buildroot}%{_bindir} %{__install} -d -m0755 %{buildroot}%{_datadir}/gplink %{__install} -m0644 gPLINK.jar %{buildroot}%{_datadir}/gplink %clean %{__rm} -rf %{buildroot} %files %defattr(-, root, root, 0755) %doc COPYING.txt README.txt %{_bindir}/plink %files -n gplink %{_bindir}/gplink %{_datadir}/gplink %changelog * Tue Oct 26 2010 Steve Huff <shuff@vecna.org> - 1.07-1 - Initial package.