Attachment 909829 Details for Bug 1105923 – Patch for rawhide

[patch] Patch for rawhide

0001-Update-no-zlibbioc-patch-add-missing-BR-1105923.patch (text/plain), 3.44 KB, created by Yaakov Selkowitz on 2014-06-18 03:55:16 UTC

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Creator: Yaakov Selkowitz

Created: 2014-06-18 03:55:16 UTC

Size: 3.44 KB

patch

obsolete

>From a03750f104b9339b227f0b81a65e1288fef13c1b Mon Sep 17 00:00:00 2001
>From: Yaakov Selkowitz <yselkowitz@users.sourceforge.net>
>Date: Tue, 17 Jun 2014 22:20:01 -0500
>Subject: [PATCH] Update no-zlibbioc patch, add missing BR (#1105923)
>
>---
> R-rtracklayer-1.22.3-no-zlibbioc.patch | 21 +++++++++++++++++++++
> R-rtracklayer.spec                     |  9 +++++++--
> 2 files changed, 28 insertions(+), 2 deletions(-)
> create mode 100644 R-rtracklayer-1.22.3-no-zlibbioc.patch
>
>diff --git a/R-rtracklayer-1.22.3-no-zlibbioc.patch b/R-rtracklayer-1.22.3-no-zlibbioc.patch
>new file mode 100644
>index 0000000..be5dd2f
>--- /dev/null
>+++ b/R-rtracklayer-1.22.3-no-zlibbioc.patch
>@@ -0,0 +1,21 @@
>+--- rtracklayer/rtracklayer/DESCRIPTION
>++++ rtracklayer/rtracklayer/DESCRIPTION
>+@@ -5,7 +5,7 @@ Author: Michael Lawrence, Vince Carey, Robert Gentleman
>+ Depends: R (>= 2.10), methods, GenomicRanges (>= 1.13.3)
>+ Imports: XML (>= 1.98-0), BiocGenerics (>= 0.7.7), IRanges (>=
>+         1.19.34), XVector (>= 0.1.3), GenomicRanges (>= 1.13.43),
>+-        Biostrings (>= 2.29.18), BSgenome (>= 1.23.1), zlibbioc, RCurl
>++        Biostrings (>= 2.29.18), BSgenome (>= 1.23.1), RCurl
>+         (>= 1.4-2), Rsamtools (>= 1.13.1)
>+ Suggests: humanStemCell, microRNA (>= 1.1.1), genefilter, limma,
>+         org.Hs.eg.db, BSgenome.Hsapiens.UCSC.hg19,
>+--- rtracklayer/rtracklayer/NAMESPACE
>++++ rtracklayer/rtracklayer/NAMESPACE
>+@@ -1,7 +1,5 @@
>+ useDynLib(rtracklayer, .registration = TRUE)
>+ 
>+-import(zlibbioc)
>+-
>+ importFrom("stats", offset)
>+ 
>+ importFrom(utils, count.fields)
>diff --git a/R-rtracklayer.spec b/R-rtracklayer.spec
>index 60d3d38..e4383f8 100644
>--- a/R-rtracklayer.spec
>+++ b/R-rtracklayer.spec
>@@ -2,20 +2,21 @@
> 
> Name:             R-%{packname}
> Version:          1.22.3
>-Release:          2%{?dist}
>+Release:          3%{?dist}
> Summary:          R interface to genome browsers and their annotation tracks
> Group:            Applications/Productivity
> License:          Artistic 2.0 and BSD
> URL:              http://www.bioconductor.org/packages/release/bioc/html/rtracklayer.html
> Source0:          http://www.bioconductor.org/packages/2.9/bioc/src/contrib/%{packname}_%{version}.tar.gz
> Source1:          rtracklayer_jimkent_license.txt
>-Patch0:           R-rtracklayer-1.20.0-no-zlibbioc.patch
>+Patch0:           R-rtracklayer-1.22.3-no-zlibbioc.patch
> Requires:         R-core >= 3.0.0, texlive-latex, R-methods, R-RCurl >= 1.4.2, R-XML >= 1.98.0 
> Requires:         R-IRanges >= 1.19.34, R-GenomicRanges >= 1.13.43, R-Biostrings >= 2.29.18 
> Requires:         R-BSgenome >= 1.15.17, R-Rsamtools >= 1.13.1, R-XVector >= 0.1.3
> BuildRequires:    R-devel >= 3.0.0, R-methods, R-RCurl >= 1.4.2, R-XML >= 1.98.0
> BuildRequires:    R-IRanges-devel >= 1.19.34, R-GenomicRanges >= 1.13.43, R-Biostrings-devel >= 2.29.18
> BuildRequires:    R-BSgenome >= 1.23.1, R-Rsamtools-devel >= 1.13.1, zlib-devel
>+BuildRequires:    R-XVector-devel >= 0.1.3
> 
> %description
> Extensible framework for interacting with multiple genome browsers (currently 
>@@ -70,6 +71,10 @@ rm -rf %{buildroot}%{_libdir}/R/library/%{packname}/tests/quickload/T_species_Oc
> %{_libdir}/R/library/%{packname}/unitTests/
> 
> %changelog
>+* Tue Jun 17 2014 Yaakov Selkowitz <yselkowi@redhat.com> - 1.22.3-3
>+- Update no-zlibbioc patch for 1.22.3 (#1105923)
>+- Add missing BR
>+
> * Fri Jun 06 2014 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 1.22.3-2
> - Rebuilt for https://fedoraproject.org/wiki/Fedora_21_Mass_Rebuild
> 
>-- 
>1.9.3
>

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Attachments on bug 1105923: 903369 | 903370 | 903371 | 909829