R-Rsamtools.spec

   1 %define         packname        Rsamtools
   2
   3 Summary:        Binary alignment (BAM), variant call (BCF), or tabix file import
   4 Name:           R-%{packname}
   5 Version:        1.14.2
   6 Release:        2
   7 License:        Artistic 2.0
   8 Group:          Applications/Math
   9 Source0:        http://www.bioconductor.org/packages/release/bioc/src/contrib/%{packname}_%{version}.tar.gz
  10 # Source0-md5:  83aa5c41214583f83c86bcc90355d59e
  11 Patch0:         bogus-deps.patch
  12 URL:            http://www.bioconductor.org/packages/release/bioc/html/Rsamtools.html
  13 BuildRequires:  R
  14 BuildRequires:  R-IRanges-devel >= 1.15.35
  15 BuildRequires:  R-GenomicRanges >= 1.11.38
  16 BuildRequires:  R-Biostrings-devel >= 2.25.6
  17 BuildRequires:  R-XVector-devel
  18 BuildRequires:  R-cran-bitops
  19 BuildRequires:  texlive-latex
  20 Requires:       R
  21 Requires:       R-IRanges >= 1.17.33
  22 Requires:       R-GenomicRanges >= 1.11.38
  23 Requires:       R-Biostrings >= 2.25.6
  24 Requires:       R-XVector
  25 Requires:       R-cran-bitops
  26 BuildRoot:      %{tmpdir}/%{name}-%{version}-root-%(id -u -n)
  27
  28 %description
  29 This package provides an interface to the 'samtools', 'bcftools',
  30 and 'tabix' utilities (see 'LICENCE') for manipulating SAM (Sequence
  31 Alignment / Map), binary variant call (BCF) and compressed indexed
  32 tab-delimited (tabix) files.
  33
  34 %package        devel
  35 Summary:        Development files for %{name}
  36 Group:          Development/Libraries
  37 Requires:       %{name} = %{version}-%{release}
  38
  39 %description    devel
  40 The %{name}-devel package contains libraries and header files for
  41 developing applications that use %{name}.
  42
  43 %prep
  44 %setup -q -c -n %{packname}
  45 %patch0 -p1
  46
  47 %build
  48 # circular dep on R-Rsamtools
  49 #{_bindir}/R CMD build %{packname}
  50
  51 %install
  52 rm -rf $RPM_BUILD_ROOT
  53 install -d $RPM_BUILD_ROOT%{_libdir}/R/library
  54
  55 %{_bindir}/R CMD INSTALL -l $RPM_BUILD_ROOT%{_libdir}/R/library %{packname}
  56
  57 %clean
  58 rm -rf $RPM_BUILD_ROOT
  59
  60 %files
  61 %defattr(644,root,root,755)
  62 %dir %{_libdir}/R/library/%{packname}/
  63 %doc %{_libdir}/R/library/%{packname}/doc/
  64 %doc %{_libdir}/R/library/%{packname}/html/
  65 %doc %{_libdir}/R/library/%{packname}/DESCRIPTION
  66 %doc %{_libdir}/R/library/%{packname}/LICENSE
  67 %doc %{_libdir}/R/library/%{packname}/NEWS
  68 %{_libdir}/R/library/%{packname}/INDEX
  69 %{_libdir}/R/library/%{packname}/NAMESPACE
  70 %{_libdir}/R/library/%{packname}/Meta/
  71 %{_libdir}/R/library/%{packname}/R/
  72 %{_libdir}/R/library/%{packname}/extdata/
  73 %{_libdir}/R/library/%{packname}/help/
  74 %{_libdir}/R/library/%{packname}/scripts/
  75 %{_libdir}/R/library/%{packname}/unitTests/
  76 %{_libdir}/R/library/%{packname}/libs/
  77
  78 %files devel
  79 %defattr(644,root,root,755)
  80 %{_libdir}/R/library/%{packname}/include
  81 %{_libdir}/R/library/%{packname}/usretc
  82 %{_libdir}/R/library/%{packname}/usrlib