[Date Prev][Date Next][Thread Prev][Thread Next][Date Index][Thread Index]
14/22: gnu: sra-tools: Update to 2.9.3.
From: |
Ricardo Wurmus |
Subject: |
14/22: gnu: sra-tools: Update to 2.9.3. |
Date: |
Thu, 8 Nov 2018 04:11:13 -0500 (EST) |
rekado pushed a commit to branch master
in repository guix.
commit 15c9609482aa26bd179d1316dcf62f6292223c96
Author: Ricardo Wurmus <address@hidden>
Date: Thu Nov 8 09:46:05 2018 +0100
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.
---
gnu/packages/bioinformatics.scm | 16 ++--------------
1 file changed, 2 insertions(+), 14 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 057151b..9954fcf 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
- branch master updated (c098c49 -> 4e82946), Ricardo Wurmus, 2018/11/08
- 04/22: gnu: mash: Remove custom autoconf phase., Ricardo Wurmus, 2018/11/08
- 02/22: gnu: java-picard-1.113: Use INVOKE., Ricardo Wurmus, 2018/11/08
- 10/22: gnu: ngs-sdk: Use INVOKE., Ricardo Wurmus, 2018/11/08
- 17/22: gnu: seek: Use INVOKE., Ricardo Wurmus, 2018/11/08
- 05/22: gnu: newick-utils: Remove custom autoconf phase., Ricardo Wurmus, 2018/11/08
- 20/22: gnu: pcc: Use INVOKE., Ricardo Wurmus, 2018/11/08
- 16/22: gnu: sailfish: Use INVOKE., Ricardo Wurmus, 2018/11/08
- 07/22: gnu: sra-tools: Use INVOKE., Ricardo Wurmus, 2018/11/08
- 14/22: gnu: sra-tools: Update to 2.9.3.,
Ricardo Wurmus <=
- 11/22: gnu: ngs-sdk: Update to 2.9.3., Ricardo Wurmus, 2018/11/08
- 12/22: gnu: ncbi-vdb: Update to 2.9.3., Ricardo Wurmus, 2018/11/08
- 08/22: gnu: taxtastic: Use INVOKE., Ricardo Wurmus, 2018/11/08
- 09/22: gnu: emboss: Use INVOKE., Ricardo Wurmus, 2018/11/08
- 01/22: gnu: fraggenescan: Use INVOKE., Ricardo Wurmus, 2018/11/08
- 19/22: gnu: pplacer-scripts: Use INVOKE., Ricardo Wurmus, 2018/11/08
- 03/22: gnu: vsearch: Remove custom autogen phase., Ricardo Wurmus, 2018/11/08
- 15/22: gnu: vsearch: Update to 2.9.1., Ricardo Wurmus, 2018/11/08
- 18/22: gnu: roary: Use INVOKE., Ricardo Wurmus, 2018/11/08
- 21/22: gnu: cmus: Use INVOKE., Ricardo Wurmus, 2018/11/08