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authorRicardo Wurmus <rekado@elephly.net>2018-11-07 21:15:28 +0100
committerRicardo Wurmus <rekado@elephly.net>2018-11-07 21:41:55 +0100
commita2b9d6a8d05aff0acba2d40ac45790d282c814bf (patch)
tree656d2d6b92398dc06f400f25a9c0a22aecd2403c /gnu
parent6052264b56856a9769cc648ac21c1811934f6211 (diff)
downloadguix-a2b9d6a8d05aff0acba2d40ac45790d282c814bf.tar.gz
guix-a2b9d6a8d05aff0acba2d40ac45790d282c814bf.zip
gnu: pplacer: Fetch sources from git.
* gnu/packages/bioinformatics.scm (pplacer)[source]: Fetch from git. [arguments]: Make files writable; use INVOKE.
Diffstat (limited to 'gnu')
-rw-r--r--gnu/packages/bioinformatics.scm16
1 files changed, 9 insertions, 7 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 7b50cebd2a..62683ad07f 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -4310,19 +4310,20 @@ interrupted by stop codons. OrfM finds and prints these ORFs.")
(license license:lgpl3+)))
(define-public pplacer
- (let ((commit "g807f6f3"))
+ (let ((commit "807f6f3"))
(package
(name "pplacer")
;; The commit should be updated with each version change.
(version "1.1.alpha19")
(source
(origin
- (method url-fetch)
- (uri (string-append "https://github.com/matsen/pplacer/archive/v"
- version ".tar.gz"))
- (file-name (string-append name "-" version ".tar.gz"))
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/matsen/pplacer.git")
+ (commit (string-append "v" version))))
+ (file-name (git-file-name name version))
(sha256
- (base32 "0z1lnd2s8sh6kpzg106wzbh2szw7h0hvq8syd5a6wv4rmyyz6x0f"))))
+ (base32 "11ppbbbx20p2g9wj3ff64dhnarb12q79v7qh4rk0gj6lkbz4n7cn"))))
(build-system ocaml-build-system)
(arguments
`(#:ocaml ,ocaml-4.01
@@ -4339,11 +4340,12 @@ interrupted by stop codons. OrfM finds and prints these ORFs.")
(local-dir "cddlib_guix"))
(mkdir local-dir)
(with-directory-excursion local-dir
- (system* "tar" "xvf" cddlib-src))
+ (invoke "tar" "xvf" cddlib-src))
(let ((cddlib-src-folder
(string-append local-dir "/"
(list-ref (scandir local-dir) 2)
"/lib-src")))
+ (for-each make-file-writable (find-files "cdd_src" ".*"))
(for-each
(lambda (file)
(copy-file file