R-vsn.spec

   1 %define         packname        vsn
   2
   3 Summary:        Variance stabilization and calibration for microarray data
   4 Name:           R-%{packname}
   5 Version:        3.26.0
   6 Release:        1
   7 License:        Artistic 2.0
   8 Group:          Applications/Engineering
   9 Source0:        http://bioconductor.org/packages/release/bioc/src/contrib/%{packname}_%{version}.tar.gz
  10 # Source0-md5:  dc3543c14aa178d9f7a3fa4ee45fb43c
  11 URL:            http://bioconductor.org/packages/release/bioc/html/%{packname}.html
  12 BuildRequires:  R
  13 BuildRequires:  R-Biobase
  14 BuildRequires:  R-limma
  15 BuildRequires:  R-affy
  16 BuildRequires:  texlive-latex
  17 Requires:       R
  18 Requires:       R-Biobase
  19 Requires:       R-limma
  20 Requires:       R-affy
  21 BuildRoot:      %{tmpdir}/%{name}-%{version}-root-%(id -u -n)
  22
  23 %description
  24 The package implements a method for normalising microarray
  25 intensities, both between colours within array, and between arrays.
  26 The method uses a robust variant of the maximum-likelihood estimator
  27 for the stochastic model of microarray data described in
  28 the references (see vignette). The model incorporates data calibration
  29 (a.k.a. normalization), a model for the dependence of the variance on
  30 the mean intensity, and a variance stabilizing data transformation.
  31 Differences between transformed intensities are analogous to
  32 "normalized log-ratios". However, in contrast to the latter, their
  33 variance is independent of the mean, and they are usually more
  34 sensitive and specific in detecting differential transcription.
  35
  36 %prep
  37 %setup -q -c -n %{packname}
  38
  39 %build
  40
  41 %install
  42 rm -rf $RPM_BUILD_ROOT
  43 install -d $RPM_BUILD_ROOT%{_libdir}/R/library
  44
  45 R CMD INSTALL %{packname} -l $RPM_BUILD_ROOT%{_libdir}/R/library
  46
  47 %clean
  48 rm -rf $RPM_BUILD_ROOT
  49
  50 %files
  51 %defattr(644,root,root,755)
  52 %dir %{_libdir}/R/library/%{packname}
  53 %doc %{_libdir}/R/library/%{packname}/doc
  54 %doc %{_libdir}/R/library/%{packname}/html
  55 %doc %{_libdir}/R/library/%{packname}/DESCRIPTION
  56 %doc %{_libdir}/R/library/%{packname}/CITATION
  57 %{_libdir}/R/library/%{packname}/INDEX
  58 %{_libdir}/R/library/%{packname}/NAMESPACE
  59 %{_libdir}/R/library/%{packname}/Meta
  60 %{_libdir}/R/library/%{packname}/R
  61 %{_libdir}/R/library/%{packname}/help
  62 %{_libdir}/R/library/%{packname}/data
  63 %{_libdir}/R/library/%{packname}/scripts
  64 %dir %{_libdir}/R/library/%{packname}/libs
  65 %attr(755,root,root) %{_libdir}/R/library/%{packname}/libs/vsn.so