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gnu: metabat: Use scons-build-system. 

* gnu/packages/bioinformatics.scm (metabat): Switch to scons-build-system.
This commit is contained in:
Arun Isaac 2017-11-17 13:20:21 +05:30
parent 82cc8253de
commit 9364a520ce
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1 changed files with 10 additions and 20 deletions
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@ -8,6 +8,7 @@
;;; Copyright © 2016 Marius Bakke <mbakke@fastmail.com> ;;; Copyright © 2016 Marius Bakke <mbakke@fastmail.com>
;;; Copyright © 2016 Raoul Bonnal <ilpuccio.febo@gmail.com> ;;; Copyright © 2016 Raoul Bonnal <ilpuccio.febo@gmail.com>
;;; Copyright © 2017 Tobias Geerinckx-Rice <me@tobias.gr> ;;; Copyright © 2017 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2017 Arun Isaac <arunisaac@systemreboot.net>
;;; ;;;
;;; This file is part of GNU Guix. ;;; This file is part of GNU Guix.
;;; ;;;
@ -39,6 +40,7 @@
#:use-module (guix build-system python) #:use-module (guix build-system python)
#:use-module (guix build-system r) #:use-module (guix build-system r)
#:use-module (guix build-system ruby) #:use-module (guix build-system ruby)
#:use-module (guix build-system scons)
#:use-module (guix build-system trivial) #:use-module (guix build-system trivial)
#:use-module (gnu packages) #:use-module (gnu packages)
#:use-module (gnu packages autotools) #:use-module (gnu packages autotools)
@ -3643,9 +3645,14 @@ form of assemblies or reads.")
(base32 (base32
"1hmvdalz3zj5sqqklg0l4npjdv37cv2hsdi1al9iby2ndxjs1b73")) "1hmvdalz3zj5sqqklg0l4npjdv37cv2hsdi1al9iby2ndxjs1b73"))
(patches (search-patches "metabat-fix-compilation.patch")))) (patches (search-patches "metabat-fix-compilation.patch"))))
(build-system gnu-build-system) (build-system scons-build-system)
(arguments (arguments
`(#:phases `(#:scons ,scons-python2
#:scons-flags
(list (string-append "PREFIX=" (assoc-ref %outputs "out"))
(string-append "BOOST_ROOT=" (assoc-ref %build-inputs "boost")))
#:tests? #f ;; Tests are run during the build phase.
#:phases
(modify-phases %standard-phases (modify-phases %standard-phases
(add-after 'unpack 'fix-includes (add-after 'unpack 'fix-includes
(lambda _ (lambda _
@ -3675,30 +3682,13 @@ form of assemblies or reads.")
"/lib'")) "/lib'"))
;; Do not distribute README. ;; Do not distribute README.
(("^env\\.Install\\(idir_prefix, 'README\\.md'\\)") "")) (("^env\\.Install\\(idir_prefix, 'README\\.md'\\)") ""))
#t)) #t)))))
(delete 'configure)
(replace 'build
(lambda* (#:key inputs outputs #:allow-other-keys)
(mkdir (assoc-ref outputs "out"))
(zero? (system* "scons"
(string-append
"PREFIX="
(assoc-ref outputs "out"))
(string-append
"BOOST_ROOT="
(assoc-ref inputs "boost"))
"install"))))
;; Check and install are carried out during build phase.
(delete 'check)
(delete 'install))))
(inputs (inputs
`(("zlib" ,zlib) `(("zlib" ,zlib)
("perl" ,perl) ("perl" ,perl)
("samtools" ,samtools) ("samtools" ,samtools)
("htslib" ,htslib) ("htslib" ,htslib)
("boost" ,boost))) ("boost" ,boost)))
(native-inputs
`(("scons" ,scons)))
(home-page "https://bitbucket.org/berkeleylab/metabat") (home-page "https://bitbucket.org/berkeleylab/metabat")
(synopsis (synopsis
"Reconstruction of single genomes from complex microbial communities") "Reconstruction of single genomes from complex microbial communities")