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84/89: gnu: r-mzr: Remove bundled copy of boost.
From: |
Ricardo Wurmus |
Subject: |
84/89: gnu: r-mzr: Remove bundled copy of boost. |
Date: |
Tue, 7 Nov 2017 02:45:02 -0500 (EST) |
rekado pushed a commit to branch master
in repository guix.
commit 15ca1959793b5ed9ae8fb525493edf9bd3caf2b8
Author: Ricardo Wurmus <address@hidden>
Date: Mon Nov 6 22:39:05 2017 +0100
gnu: r-mzr: Remove bundled copy of boost.
* gnu/packages/bioinformatics.scm (r-mzr)[source]: Remove boost source.
[arguments]: Add build phase "use-system-boost" to link with our boost
package and avoid building the bundled sources.
---
gnu/packages/bioinformatics.scm | 19 ++++++++++++++++++-
1 file changed, 18 insertions(+), 1 deletion(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 2ad5f95..115af50 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -8899,9 +8899,26 @@ proteomics packages.")
(uri (bioconductor-uri "mzR" version))
(sha256
(base32
- "1x3gp30sfxz2v3k3swih9kff9b2rvk7hzhnlkp6ywlnn2wgb0q8c"))))
+ "1x3gp30sfxz2v3k3swih9kff9b2rvk7hzhnlkp6ywlnn2wgb0q8c"))
+ (modules '((guix build utils)))
+ (snippet
+ '(begin
+ (delete-file-recursively "src/boost")
+ #t))))
(properties `((upstream-name . "mzR")))
(build-system r-build-system)
+ (arguments
+ `(#:phases
+ (modify-phases %standard-phases
+ (add-after 'unpack 'use-system-boost
+ (lambda _
+ (substitute* "src/Makevars"
+ (("\\./boost/libs.*") "")
+ (("ARCH_OBJS=" line)
+ (string-append line
+ "\nARCH_LIBS=-lboost_system -lboost_regex \
+-lboost_iostreams -lboost_thread -lboost_filesystem -lboost_chrono\n")))
+ #t)))))
(inputs
`(("boost" ,boost) ; use this instead of the bundled boost sources
("netcdf" ,netcdf)))
- 38/89: gnu: r-xvector: Update to 0.18.0., (continued)
- 38/89: gnu: r-xvector: Update to 0.18.0., Ricardo Wurmus, 2017/11/07
- 42/89: gnu: r-biostrings: Update to 2.46.0., Ricardo Wurmus, 2017/11/07
- 50/89: gnu: r-seqpattern: Update to 1.10.0., Ricardo Wurmus, 2017/11/07
- 53/89: gnu: r-seqlogo: Update to 1.44.0., Ricardo Wurmus, 2017/11/07
- 62/89: gnu: r-interactivedisplaybase: Update to 1.16.0., Ricardo Wurmus, 2017/11/07
- 66/89: gnu: r-motifrg: Rename input label., Ricardo Wurmus, 2017/11/07
- 82/89: gnu: r-mzid: Update to 1.16.0., Ricardo Wurmus, 2017/11/07
- 81/89: gnu: r-chipseq: Update to 1.28.0., Ricardo Wurmus, 2017/11/07
- 73/89: gnu: r-category: Update to 2.44.0., Ricardo Wurmus, 2017/11/07
- 77/89: gnu: r-biocparallel: Update to 1.12.0., Ricardo Wurmus, 2017/11/07
- 84/89: gnu: r-mzr: Remove bundled copy of boost.,
Ricardo Wurmus <=
- 80/89: gnu: r-genomicfeatures: Update to 1.30.0., Ricardo Wurmus, 2017/11/07
- 79/89: gnu: Add r-rmysql., Ricardo Wurmus, 2017/11/07
- 64/89: gnu: r-qvalue: Update to 2.10.0., Ricardo Wurmus, 2017/11/07
- 35/89: gnu: r-genomeinfodb: Update to 1.14.0., Ricardo Wurmus, 2017/11/07
- 41/89: gnu: r-annotationdbi: Update to 1.40.0., Ricardo Wurmus, 2017/11/07
- 47/89: gnu: r-graph: Update to 1.56.0., Ricardo Wurmus, 2017/11/07
- 46/89: gnu: r-genomicalignments: Update to 1.14.0., Ricardo Wurmus, 2017/11/07
- 52/89: gnu: r-genomation: Update to 1.10.0., Ricardo Wurmus, 2017/11/07
- 55/89: gnu: r-affy: Update to 1.56.0., Ricardo Wurmus, 2017/11/07
- 56/89: gnu: r-affyio: Update to 1.48.0., Ricardo Wurmus, 2017/11/07