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:        1.12.2
   6 Release:        1
   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:  4ff6113fe8b925cf7586e1331da1ec23
  11 Patch0:         bogus-deps.patch
  12 URL:            http://www.bioconductor.org/packages/2.12/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:  texlive-latex
  18 Requires:       R
  19 Requires:       R-IRanges >= 1.17.33
  20 Requires:       R-GenomicRanges >= 1.11.38
  21 Requires:       R-Biostrings >= 2.25.6
  22 BuildRoot:      %{tmpdir}/%{name}-%{version}-root-%(id -u -n)
  23
  24 %description
  25 This package provides an interface to the 'samtools', 'bcftools',
  26 and 'tabix' utilities (see 'LICENCE') for manipulating SAM (Sequence
  27 Alignment / Map), binary variant call (BCF) and compressed indexed
  28 tab-delimited (tabix) files.
  29
  30 %package        devel
  31 Summary:        Development files for %{name}
  32 Group:          Development/Libraries
  33 Requires:       %{name} = %{version}-%{release}
  34
  35 %description    devel
  36 The %{name}-devel package contains libraries and header files for
  37 developing applications that use %{name}.
  38
  39 %prep
  40 %setup -q -c -n %{packname}
  41 %patch0 -p1
  42
  43 %build
  44 # circular dep on R-Rsamtools
  45 #{_bindir}/R CMD build %{packname}
  46
  47 %install
  48 rm -rf $RPM_BUILD_ROOT
  49 install -d $RPM_BUILD_ROOT%{_libdir}/R/library
  50
  51 %{_bindir}/R CMD INSTALL -l $RPM_BUILD_ROOT%{_libdir}/R/library %{packname}
  52
  53 %clean
  54 rm -rf $RPM_BUILD_ROOT
  55
  56 %files
  57 %defattr(644,root,root,755)
  58 %dir %{_libdir}/R/library/%{packname}/
  59 %doc %{_libdir}/R/library/%{packname}/doc/
  60 %doc %{_libdir}/R/library/%{packname}/html/
  61 %doc %{_libdir}/R/library/%{packname}/DESCRIPTION
  62 %doc %{_libdir}/R/library/%{packname}/LICENSE
  63 %doc %{_libdir}/R/library/%{packname}/NEWS
  64 %{_libdir}/R/library/%{packname}/INDEX
  65 %{_libdir}/R/library/%{packname}/NAMESPACE
  66 %{_libdir}/R/library/%{packname}/Meta/
  67 %{_libdir}/R/library/%{packname}/R/
  68 %{_libdir}/R/library/%{packname}/extdata/
  69 %{_libdir}/R/library/%{packname}/help/
  70 %{_libdir}/R/library/%{packname}/scripts/
  71 %{_libdir}/R/library/%{packname}/unitTests/
  72 %{_libdir}/R/library/%{packname}/libs/
  73
  74 %files devel
  75 %defattr(644,root,root,755)
  76 %{_libdir}/R/library/%{packname}/include
  77 %{_libdir}/R/library/%{packname}/usretc
  78 %{_libdir}/R/library/%{packname}/usrlib