From: "Mădălin Ionel Patrașcu" <madalinionel.patrascu@mdc-berlin.de>
To: <62978@debbugs.gnu.org>
Subject: [bug#62978]
Date: Fri, 21 Apr 2023 01:05:20 +0200 [thread overview]
Message-ID: <20230420230523.6648-3-madalinionel.patrascu@mdc-berlin.de> (raw)
In-Reply-To: <20230420230523.6648-1-madalinionel.patrascu@mdc-berlin.de>
Date: Thu, 20 Apr 2023 23:59:42 +0200
Subject: [PATCH 3/6] gnu: bpp-phyl: Update to 2.4.1.
MIME-Version: 1.0
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* gnu/packages/bioinformatics.scm (bpp-phyl): Update to 2.4.1.
[source]: Remove the commit and use the release version. Changed to the github
repo.
[arguments]: Remove the disabled parallel-build and out-of-source.
[home-page]: Changed to new host Université Claude-Bernard Lyon 1.
---
gnu/packages/bioinformatics.scm | 49 ++++++++++++++-------------------
1 file changed, 20 insertions(+), 29 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 232d0e42c6..ad61b979dd 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -2244,37 +2244,28 @@ (define-public bpp-core
(license license:cecill-c)))
(define-public bpp-phyl
- ;; The last release was in 2014 and the recommended way to install from source
- ;; is to clone the git repository, so we do this.
- ;; http://biopp.univ-montp2.fr/wiki/index.php/Main_Page
- (let ((commit "0c07167b629f68b569bf274d1ad0c4af83276ae2"))
- (package
- (name "bpp-phyl")
- (version (string-append "2.2.0-1." (string-take commit 7)))
- (source (origin
- (method git-fetch)
- (uri (git-reference
- (url "http://biopp.univ-montp2.fr/git/bpp-phyl")
- (commit commit)))
- (file-name (string-append name "-" version "-checkout"))
- (sha256
- (base32
- "1ssjgchzwj3iai26kyly7gwkdv8sk59nqhkb1wpap3sf5m6kyllh"))))
- (build-system cmake-build-system)
- (arguments
- `(#:parallel-build? #f
- ;; If out-of-source, test data is not copied into the build directory
- ;; so the tests fail.
- #:out-of-source? #f))
- (inputs
- (list bpp-core bpp-seq))
- (home-page "http://biopp.univ-montp2.fr")
- (synopsis "Bio++ phylogenetic Library")
- (description
- "Bio++ is a set of C++ libraries for Bioinformatics, including sequence
+ (package
+ (name "bpp-phyl")
+ (version "2.4.1")
+ (source (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/BioPP/bpp-phyl")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32
+ "192zks6wyk903n06c2lbsscdhkjnfwms8p7jblsmk3lvjhdipb20"))))
+ (build-system cmake-build-system)
+ (inputs
+ (list bpp-core bpp-seq))
+ (home-page "https://pbil.univ-lyon1.fr/bpp-doc/bpp-phyl/html/")
+ (synopsis "Bio++ phylogenetic library")
+ (description
+ "Bio++ is a set of C++ libraries for Bioinformatics, including sequence
analysis, phylogenetics, molecular evolution and population genetics. This
library provides phylogenetics-related modules.")
- (license license:cecill-c))))
+ (license license:cecill-c)))
(define-public bpp-popgen
;; The last release was in 2014 and the recommended way to install from source
--
2.39.2
next prev parent reply other threads:[~2023-04-20 23:06 UTC|newest]
Thread overview: 14+ messages / expand[flat|nested] mbox.gz Atom feed top
2023-04-20 23:02 [bug#62978] gnu: bpp-core, bpp-seq, bpp-phyl: Update to 2.4.1. && gnu: Add bpp-seq-omics, bpp-phyl-omics and maffilter MadalinIonel.Patrascu
2023-04-20 23:05 ` [bug#62978] Mădălin Ionel Patrașcu
2023-04-20 23:05 ` [bug#62978] Mădălin Ionel Patrașcu
2023-04-20 23:05 ` Mădălin Ionel Patrașcu [this message]
2023-04-20 23:05 ` [bug#62978] Mădălin Ionel Patrașcu
2023-04-20 23:05 ` [bug#62978] Mădălin Ionel Patrașcu
2023-04-20 23:05 ` [bug#62978] Mădălin Ionel Patrașcu
2023-04-21 8:16 ` [bug#62978] [PATCH v2 1/6] gnu: bpp-core: Update to 2.4.1 Mădălin Ionel Patrașcu
2023-04-21 8:16 ` [bug#62978] [PATCH v2 2/6] gnu: bpp-seq: " Mădălin Ionel Patrașcu
2023-04-21 8:16 ` [bug#62978] [PATCH v2 3/6] gnu: bpp-phyl: " Mădălin Ionel Patrașcu
2023-04-21 8:16 ` [bug#62978] [PATCH v2 4/6] gnu: Add bpp-seq-omics Mădălin Ionel Patrașcu
2023-04-21 8:16 ` [bug#62978] [PATCH v2 5/6] gnu: Add bpp-phyl-omics Mădălin Ionel Patrașcu
2023-04-21 8:16 ` [bug#62978] [PATCH v2 6/6] gnu: Add maffilter Mădălin Ionel Patrașcu
2023-04-21 11:16 ` bug#62978: gnu: bpp-core, bpp-seq, bpp-phyl: Update to 2.4.1. && gnu: Add bpp-seq-omics, bpp-phyl-omics and maffilter Ricardo Wurmus
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