- new

diff --git a/R-affyPLM.spec b/R-affyPLM.spec
new file mode 100644 (file)
index 0000000..ab7d075
--- /dev/null
+++ b/R-affyPLM.spec
@@ -0,0 +1,63 @@
+%define                packname        affyPLM
+
+Summary:       Methods for fitting probe-level models
+Name:          R-%{packname}
+Version:       1.34.0
+Release:       1
+License:       LGPL v2+
+Group:         Applications/Engineering
+Source0:       http://bioconductor.org/packages/release/bioc/src/contrib/%{packname}_%{version}.tar.gz
+# Source0-md5: 95793fc13d81edf7db5e11dd49348302
+Patch0:                bogus-deps.patch
+URL:           http://bioconductor.org/packages/release/bioc/html/%{packname}.html
+BuildRequires: R
+BuildRequires: R-Biobase
+BuildRequires: R-BiocGenerics
+BuildRequires: R-affy
+BuildRequires: R-preprocessCore-devel
+BuildRequires: R-gcrma
+BuildRequires: texlive-latex
+Requires:      R
+Requires:      R-Biobase
+Requires:      R-BiocGenerics
+Requires:      R-affy
+Requires:      R-preprocessCore
+Suggests:      R-gcrma
+BuildRoot:     %{tmpdir}/%{name}-%{version}-root-%(id -u -n)
+
+%description
+A package that extends and improves the functionality of the base affy
+package. Routines that make heavy use of compiled code for speed.
+Central focus is on implementation of methods for fitting probe-level
+models and tools using these models. PLM based quality assessment
+tools.
+
+%prep
+%setup -q -c -n %{packname}
+%patch0 -p1
+
+%build
+
+%install
+rm -rf $RPM_BUILD_ROOT
+install -d $RPM_BUILD_ROOT%{_libdir}/R/library
+
+R CMD INSTALL %{packname} -l $RPM_BUILD_ROOT%{_libdir}/R/library
+
+%clean
+rm -rf $RPM_BUILD_ROOT
+
+%files
+%defattr(644,root,root,755)
+%dir %{_libdir}/R/library/%{packname}
+%doc %{_libdir}/R/library/%{packname}/doc
+%doc %{_libdir}/R/library/%{packname}/html
+%doc %{_libdir}/R/library/%{packname}/DESCRIPTION
+%doc %{_libdir}/R/library/%{packname}/CITATION
+%{_libdir}/R/library/%{packname}/INDEX
+%{_libdir}/R/library/%{packname}/NAMESPACE
+%{_libdir}/R/library/%{packname}/Meta
+%{_libdir}/R/library/%{packname}/R
+%{_libdir}/R/library/%{packname}/help
+%dir %{_libdir}/R/library/%{packname}/libs
+%attr(755,root,root) %{_libdir}/R/library/%{packname}/libs/affyPLM.so

diff --git a/bogus-deps.patch b/bogus-deps.patch
new file mode 100644 (file)
index 0000000..6e6adf7
--- /dev/null
+++ b/bogus-deps.patch
@@ -0,0 +1,20 @@
+--- affyPLM/affyPLM/DESCRIPTION~       2012-10-02 04:47:52.000000000 +0200
++++ affyPLM/affyPLM/DESCRIPTION        2012-10-18 12:35:56.190649131 +0200
+@@ -5,7 +5,7 @@
+ Maintainer: Ben Bolstad <bmb@bmbolstad.com>
+ Depends: R (>= 2.6.0), BiocGenerics (>= 0.3.2), affy (>= 1.11.0),
+         Biobase (>= 2.17.8), gcrma, stats, preprocessCore (>= 1.5.1)
+-Imports: BiocGenerics, zlibbioc, graphics, grDevices, methods
++Imports: BiocGenerics, graphics, grDevices, methods
+ Suggests: affydata, MASS
+ LinkingTo: preprocessCore
+ Description: A package that extends and improves the functionality of
+--- affyPLM/affyPLM/NAMESPACE~ 2012-10-02 01:01:42.000000000 +0200
++++ affyPLM/affyPLM/NAMESPACE  2012-10-18 12:36:02.453982243 +0200
+@@ -1,6 +1,5 @@
+ useDynLib("affyPLM")
+ 
+-import(zlibbioc)
+ import(methods)
+ 
+ #Generated by codetoolsBioC version 0.0.17