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gnu: khmer: Make gzip timestamps writable. 

* gnu/packages/bioinformatics.scm (khmer)[arguments]: Add custom phase
to make gzip timestamps writable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
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Brian Leung 2019-06-25 20:48:54 +02:00 committed by Efraim Flashner
parent 5ee4d11ff4
commit d9340de903
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1 changed files with 10 additions and 2 deletions
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@ -13,6 +13,7 @@
;;; Copyright © 2018 Gábor Boskovits <boskovits@gmail.com> ;;; Copyright © 2018 Gábor Boskovits <boskovits@gmail.com>
;;; Copyright © 2018 Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> ;;; Copyright © 2018 Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de>
;;; Copyright © 2019 Maxim Cournoyer <maxim.cournoyer@gmail.com> ;;; Copyright © 2019 Maxim Cournoyer <maxim.cournoyer@gmail.com>
;;; Copyright © 2019 Brian Leung <bkleung89@gmail.com>
;;; ;;;
;;; This file is part of GNU Guix. ;;; This file is part of GNU Guix.
;;; ;;;
@ -4206,8 +4207,15 @@ command, or queried for specific k-mers with @code{jellyfish query}.")
(modify-phases %standard-phases (modify-phases %standard-phases
(add-after 'unpack 'set-cc (add-after 'unpack 'set-cc
(lambda _ (setenv "CC" "gcc") #t)) (lambda _ (setenv "CC" "gcc") #t))
;; FIXME: This fails with "permission denied".
(delete 'reset-gzip-timestamps)))) (add-before 'reset-gzip-timestamps 'make-files-writable
(lambda* (#:key outputs #:allow-other-keys)
;; Make sure .gz files are writable so that the
;; 'reset-gzip-timestamps' phase can do its work.
(let ((out (assoc-ref outputs "out")))
(for-each make-file-writable
(find-files out "\\.gz$"))
#t))))))
(native-inputs (native-inputs
`(("python-cython" ,python-cython) `(("python-cython" ,python-cython)
("python-pytest" ,python-pytest) ("python-pytest" ,python-pytest)