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authorRicardo Wurmus <rekado@elephly.net>2019-02-06 21:24:42 +0100
committerRicardo Wurmus <rekado@elephly.net>2019-02-06 21:32:16 +0100
commit6df215f8c8ad0ed4afd8c32a0414cf2ac7ec8983 (patch)
treed95ae91b1719472e639f1ecfab5457aae8d2a882
parentd11840b43ed2e0174b6012f1aeefb4c910c8c6c4 (diff)
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gnu: star: Update to 2.7.0b.
* gnu/packages/bioinformatics.scm (star): Update to 2.7.0b. [arguments]: Add "add-missing-header" build phase.
-rw-r--r--gnu/packages/bioinformatics.scm11
1 files changed, 9 insertions, 2 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 23eba74175..516a7c1ee1 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -6020,7 +6020,7 @@ application of SortMeRNA is filtering rRNA from metatranscriptomic data.")
(define-public star
(package
(name "star")
- (version "2.7.0a")
+ (version "2.7.0b")
(source (origin
(method git-fetch)
(uri (git-reference
@@ -6029,7 +6029,7 @@ application of SortMeRNA is filtering rRNA from metatranscriptomic data.")
(file-name (string-append name "-" version "-checkout"))
(sha256
(base32
- "1yx28gra6gqdx1ps5y8mpdinsn8r0dhsc2m3gcvjfrk71i9yhd6l"))
+ "1lih6cbpvnvhyvvswdhy06mwyzvwax96m723378v4z6psqzsh11d"))
(modules '((guix build utils)))
(snippet
'(begin
@@ -6055,6 +6055,13 @@ application of SortMeRNA is filtering rRNA from metatranscriptomic data.")
(("(COMPILATION_TIME_PLACE=\")(.*)(\")" _ pre mid post)
(string-append pre "Built with Guix" post)))
#t))
+ ;; See https://github.com/alexdobin/STAR/pull/562
+ (add-after 'enter-source-dir 'add-missing-header
+ (lambda _
+ (substitute* "SoloReadFeature_inputRecords.cpp"
+ (("#include \"binarySearch2.h\"" h)
+ (string-append h "\n#include <math.h>")))
+ #t))
(add-after 'enter-source-dir 'do-not-use-bundled-htslib
(lambda _
(substitute* "Makefile"