GNU bug report logs - #46448
[PATCH] gnu: bowtie1: Update to 1.3.0.

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From: help-debbugs <at> gnu.org (GNU bug Tracking System)
To: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
Subject: bug#46448: closed (Fwd: Re: [PATCH] gnu: bowtie1: Update to 1.3.0.)
Date: Thu, 11 Feb 2021 21:40:02 +0000

[Message part 1 (text/plain, inline)]

Your bug report

#46448: [PATCH] gnu: bowtie1: Update to 1.3.0.

which was filed against the guix-patches package, has been closed.

The explanation is attached below, along with your original report.
If you require more details, please reply to 46448 <at> debbugs.gnu.org.

-- 
46448: http://debbugs.gnu.org/cgi/bugreport.cgi?bug=46448
GNU Bug Tracking System
Contact help-debbugs <at> gnu.org with problems

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From: Ricardo Wurmus <rekado <at> elephly.net>
To: 46448-done <at> debbugs.gnu.org
Subject: Fwd: Re: [PATCH] gnu: bowtie1: Update to 1.3.0.
Date: Thu, 11 Feb 2021 22:39:33 +0100

Ricardo Wurmus <rekado <at> elephly.net> writes:

> Mădălin Ionel Patrașcu <madalinionel.patrascu <at> mdc-berlin.de> writes:
>
>> * gnu/packages/bioinformatics.scm (bowtie1): Update to 1.3.0.
>
> Pushed with commit 160e4a95e7 with a slightly changed commit message to
> mention the change to the “arguments” field.
>
> Thanks!


-- 
Ricardo

[Message part 3 (message/rfc822, inline)]

From: Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
To: <guix-patches <at> gnu.org>
Cc: rekado <at> elephly.net, Mădălin Ionel Patrașcu
 <madalinionel.patrascu <at> mdc-berlin.de>
Subject: [PATCH] gnu: bowtie1: Update to 1.3.0.
Date: Thu, 11 Feb 2021 22:03:29 +0100

* gnu/packages/bioinformatics.scm (bowtie1): Update to 1.3.0.
---
 gnu/packages/bioinformatics.scm | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index cbf08c5dd2..ab149d6aad 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -1654,14 +1654,14 @@ gapped, local, and paired-end alignment modes.")
 (define-public bowtie1
   (package
     (name "bowtie1")
-    (version "1.2.3")
+    (version "1.3.0")
     (source (origin
               (method url-fetch)
               (uri (string-append "mirror://sourceforge/bowtie-bio/bowtie/"
-                                  version "/bowtie-src-x86_64.zip"))
+                                  version "/bowtie-" version "-src.zip"))
               (sha256
                (base32
-                "0vmiqdhc9dzyfy9sh6vgi7k9xy2hiw8g87vbamnc6cgpm179zsa4"))
+                "11dbihdnrizc6qhx9xsw77w3q5ssx642alaqzvhxx32ak9glvq04"))
               (modules '((guix build utils)))
               (snippet
                '(substitute* "Makefile"
@@ -1672,7 +1672,7 @@ gapped, local, and paired-end alignment modes.")
     (arguments
      '(#:tests? #f                      ; no "check" target
        #:make-flags
-       (list "all"
+       (list "CC=gcc" "all"
              (string-append "prefix=" (assoc-ref %outputs "out")))
        #:phases
        (modify-phases %standard-phases
-- 
2.30.0

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