%global packname GenomicAlignments %global packver 1.32.1 %global __suggests_exclude ^R\\((BSgenome\\.Dmelanogaster\\.UCSC\\.dm3|BSgenome\\.Hsapiens\\.UCSC\\.hg19|BiocStyle|DESeq2|GenomicFeatures|RNAseqData\\.HNRNPC\\.bam\\.chr14|ShortRead|TxDb\\.Dmelanogaster\\.UCSC\\.dm3\\.ensGene|TxDb\\.Hsapiens\\.UCSC\\.hg19\\.knownGene|edgeR|pasillaBamSubset)\\) Name: R-%{packname} Version: %{packver} Release: 1%{?dist} Source0: http://www.bioconductor.org/packages/release/bioc/src/contrib/%{packname}_%{packver}.tar.gz License: Artistic 2.0 URL: http://www.bioconductor.org/packages/release/bioc/html/%{packname}.html Summary: Representation and manipulation of short genomic alignments BuildRequires: R-devel >= 4.0.0, tetex-latex, R-methods, R-BiocGenerics >= 0.37.0, R-S4Vectors-devel >= 0.27.12 BuildRequires: R-IRanges-devel >= 2.23.9, R-GenomeInfoDb >= 1.13.1, R-GenomicRanges >= 1.41.5 BuildRequires: R-SummarizedExperiment >= 1.9.13, R-Biostrings >= 2.55.7, R-Rsamtools-devel >= 1.31.2 BuildRequires: R-utils, R-stats, R-BiocParallel %description Provides efficient containers for storing and manipulating short genomic alignments (typically obtained by aligning short reads to a reference genome). This includes read counting, computing the coverage, junction detection, and working with the nucleotide content of the alignments. %prep %setup -q -c -n %{packname} %build %install mkdir -p %{buildroot}%{_libdir}/R/library R CMD INSTALL %{packname} -l %{buildroot}%{_libdir}/R/library # Clean up in advance of check test -d %{packname}/src && (cd %{packname}/src; rm -f *.o *.so) %{__rm} -rf %{buildroot}%{_libdir}/R/library/R.css %check # Too many missing deps # %%{_bindir}/R CMD check %%{packname} %files %dir %{_libdir}/R/library/%{packname} %doc %{_libdir}/R/library/%{packname}/html %{_libdir}/R/library/%{packname}/CITATION %{_libdir}/R/library/%{packname}/DESCRIPTION %{_libdir}/R/library/%{packname}/INDEX %{_libdir}/R/library/%{packname}/NAMESPACE %{_libdir}/R/library/%{packname}/NEWS %{_libdir}/R/library/%{packname}/Meta %{_libdir}/R/library/%{packname}/help %{_libdir}/R/library/%{packname}/doc %{_libdir}/R/library/%{packname}/extdata %{_libdir}/R/library/%{packname}/libs %{_libdir}/R/library/%{packname}/R %{_libdir}/R/library/%{packname}/unitTests %changelog * Sat Sep 3 2022 Tom Callaway - 1.32.1-1 - update to 1.32.1 - rebuild for R 4.2.1 * Wed Jul 20 2022 Fedora Release Engineering - 1.28.0-4 - Rebuilt for https://fedoraproject.org/wiki/Fedora_37_Mass_Rebuild * Wed Jan 19 2022 Fedora Release Engineering - 1.28.0-3 - Rebuilt for https://fedoraproject.org/wiki/Fedora_36_Mass_Rebuild * Wed Jul 21 2021 Fedora Release Engineering - 1.28.0-2 - Rebuilt for https://fedoraproject.org/wiki/Fedora_35_Mass_Rebuild * Thu Jun 17 2021 Tom Callaway - 1.28.0-1 - update to 1.28.0 - Rebuilt for R 4.1.0 * Thu Feb 4 2021 Tom Callaway - 1.26.0-1 - update to 1.26.0 * Mon Jan 25 2021 Fedora Release Engineering - 1.22.1-4 - Rebuilt for https://fedoraproject.org/wiki/Fedora_34_Mass_Rebuild * Mon Jul 27 2020 Fedora Release Engineering - 1.22.1-3 - Rebuilt for https://fedoraproject.org/wiki/Fedora_33_Mass_Rebuild * Sat Jul 04 2020 José Abílio Matos - 1.22.1-2 - rebuild for R 4 * Sat Feb 1 2020 Tom Callaway - 1.22.1-1 - update to 1.22.1 * Tue Jan 28 2020 Fedora Release Engineering - 1.22.0-3 - Rebuilt for https://fedoraproject.org/wiki/Fedora_32_Mass_Rebuild * Thu Nov 21 2019 Elliott Sales de Andrade - 1.22.0-2 - Exclude Suggests for unavailable packages * Wed Nov 6 2019 Tom Callaway - 1.22.0-1 - update to 1.22.0 * Mon Aug 12 2019 Elliott Sales de Andrade - 1.18.1-3 - Remove explicit dependencies provided by automatic dependency generator * Wed Jul 24 2019 Fedora Release Engineering - 1.18.1-2 - Rebuilt for https://fedoraproject.org/wiki/Fedora_31_Mass_Rebuild * Wed Feb 6 2019 Tom Callaway - 1.18.1-1 - update to 1.18.1 * Thu Jan 31 2019 Fedora Release Engineering - 1.16.0-3 - Rebuilt for https://fedoraproject.org/wiki/Fedora_30_Mass_Rebuild * Thu Jul 12 2018 Fedora Release Engineering - 1.16.0-2 - Rebuilt for https://fedoraproject.org/wiki/Fedora_29_Mass_Rebuild * Thu May 17 2018 Tom Callaway - 1.16.0-1 - update to 1.16.0 * Wed Mar 14 2018 Tom Callaway - 1.14.1-1 - update to 1.14.1 * Wed Feb 07 2018 Fedora Release Engineering - 1.12.1-4 - Rebuilt for https://fedoraproject.org/wiki/Fedora_28_Mass_Rebuild * Wed Aug 02 2017 Fedora Release Engineering - 1.12.1-3 - Rebuilt for https://fedoraproject.org/wiki/Fedora_27_Binutils_Mass_Rebuild * Wed Jul 26 2017 Fedora Release Engineering - 1.12.1-2 - Rebuilt for https://fedoraproject.org/wiki/Fedora_27_Mass_Rebuild * Wed May 31 2017 Tom Callaway - 1.12.1-1 - initial package