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gnu: pplacer: Fetch sources from git. 

* gnu/packages/bioinformatics.scm (pplacer)[source]: Fetch from git.
[arguments]: Make files writable; use INVOKE.
This commit is contained in:
Ricardo Wurmus 2018-11-07 21:15:28 +01:00
parent 6052264b56
commit a2b9d6a8d0
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GPG Key ID: 197A5888235FACAC
1 changed files with 9 additions and 7 deletions
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@ -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