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authorRicardo Wurmus <rekado@elephly.net>2018-11-08 09:46:05 +0100
committerRicardo Wurmus <rekado@elephly.net>2018-11-08 09:46:05 +0100
commit15c9609482aa26bd179d1316dcf62f6292223c96 (patch)
treeb6a71136ba7226adbb2d81146dd7a4c321b91650
parentb17333414ff75db6e909533b383171721d60702e (diff)
downloadguix-15c9609482aa26bd179d1316dcf62f6292223c96.tar
guix-15c9609482aa26bd179d1316dcf62f6292223c96.tar.gz
gnu: sra-tools: Update to 2.9.3.
* gnu/packages/bioinformatics.scm (sra-tools): Update to 2.9.3. [arguments]: Remove build phase patch-away-glibc-conflict.
-rw-r--r--gnu/packages/bioinformatics.scm16
1 files changed, 2 insertions, 14 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 057151be05..9954fcf20b 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -5654,7 +5654,7 @@ sequence itself can be retrieved from these databases.")
(define-public sra-tools
(package
(name "sra-tools")
- (version "2.8.2-1")
+ (version "2.9.3")
(source
(origin
(method git-fetch)
@@ -5664,7 +5664,7 @@ sequence itself can be retrieved from these databases.")
(file-name (git-file-name name version))
(sha256
(base32
- "12ln0pk8yajhmmj9xsfwa1qgv5m05ji40jsg17wdcls62zz6fwrk"))))
+ "0663gcdxkziwsmlznjxysb00621rllpbz6jwsfifq7z3dj3lwm8b"))))
(build-system gnu-build-system)
(arguments
`(#:parallel-build? #f ; not supported
@@ -5733,18 +5733,6 @@ sequence itself can be retrieved from these databases.")
(assoc-ref inputs "ngs-sdk"))
(string-append "--with-hdf5-prefix="
(assoc-ref inputs "hdf5")))
- #t))
- ;; This version of sra-tools fails to build with glibc because of a
- ;; naming conflict. glibc-2.25/include/bits/mathcalls.h already
- ;; contains a definition of "canonicalize", so we rename it.
- ;;
- ;; See upstream bug report:
- ;; https://github.com/ncbi/sra-tools/issues/67
- (add-after 'unpack 'patch-away-glibc-conflict
- (lambda _
- (substitute* "tools/bam-loader/bam.c"
- (("canonicalize\\(" line)
- (string-append "sra_tools_" line)))
#t)))))
(native-inputs `(("perl" ,perl)))
(inputs