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93cd0b93 JR |
1 | %define packname Rsamtools |
2 | ||
3 | Summary: Binary alignment (BAM), variant call (BCF), or tabix file import | |
4 | Name: R-%{packname} | |
8ada0e2f | 5 | Version: 1.14.2 |
cab02c70 | 6 | Release: 2 |
93cd0b93 JR |
7 | License: Artistic 2.0 |
8 | Group: Applications/Math | |
8ada0e2f JR |
9 | Source0: http://www.bioconductor.org/packages/release/bioc/src/contrib/%{packname}_%{version}.tar.gz |
10 | # Source0-md5: 83aa5c41214583f83c86bcc90355d59e | |
93cd0b93 | 11 | Patch0: bogus-deps.patch |
8ada0e2f | 12 | URL: http://www.bioconductor.org/packages/release/bioc/html/Rsamtools.html |
93cd0b93 JR |
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 | |
cab02c70 JR |
17 | BuildRequires: R-XVector-devel |
18 | BuildRequires: R-cran-bitops | |
93cd0b93 JR |
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 | |
cab02c70 JR |
24 | Requires: R-XVector |
25 | Requires: R-cran-bitops | |
93cd0b93 JR |
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 |