nixo
/
guix-devel
1
0
Fork 0
Code Issues Pull Requests Releases Wiki Activity

import cran: Automatically add gfortran and zlib when needed. 

* guix/import/cran.scm (needs-fortran?, needs-zlib?): New procedures.
(description->package): Use them.
This commit is contained in:
Ricardo Wurmus 2017-03-27 12:53:13 +02:00 committed by Ricardo Wurmus
parent 6dfd683dc7
commit 2dca8b2d51
No known key found for this signature in database
GPG Key ID: 197A5888235FACAC
1 changed files with 45 additions and 3 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

48
guix/import/cran.scm
View File

@ -1,5 +1,5 @@
;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2015, 2016 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2015, 2016, 2017 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2015, 2016, 2017 Ludovic Courtès <ludo@gnu.org>
;;;
;;; This file is part of GNU Guix.
@ -20,7 +20,7 @@
(define-module (guix import cran)
#:use-module (ice-9 match)
#:use-module (ice-9 regex)
#:use-module ((ice-9 rdelim) #:select (read-string))
#:use-module ((ice-9 rdelim) #:select (read-string read-line))
#:use-module (srfi srfi-1)
#:use-module (srfi srfi-26)
#:use-module (srfi srfi-34)
@ -34,6 +34,8 @@
#:use-module (guix base32)
#:use-module ((guix download) #:select (download-to-store))
#:use-module (guix import utils)
#:use-module ((guix build utils) #:select (find-files))
#:use-module (guix utils)
#:use-module ((guix build-system r) #:select (cran-uri bioconductor-uri))
#:use-module (guix upstream)
#:use-module (guix packages)
@ -187,6 +189,39 @@ empty list when the FIELD cannot be found."
(chr (char-downcase chr)))
name)))
(define (needs-fortran? tarball)
"Check if the TARBALL contains Fortran source files."
(define (check pattern)
(parameterize ((current-error-port (%make-void-port "rw+"))
(current-output-port (%make-void-port "rw+")))
(zero? (system* "tar" "--wildcards" "--list" pattern "-f" tarball))))
(or (check "*.f90")
(check "*.f95")
(check "*.f")))
(define (needs-zlib? tarball)
"Return #T if any of the Makevars files in the src directory of the TARBALL
contain a zlib linker flag."
(call-with-temporary-directory
(lambda (dir)
(let ((pattern (make-regexp "-lz")))
(parameterize ((current-error-port (%make-void-port "rw+")))
(system* "tar"
"xf" tarball "-C" dir
"--wildcards"
"*/src/Makevars*" "*/src/configure*" "*/configure*"))
(any (lambda (file)
(call-with-input-file file
(lambda (port)
(let loop ()
(let ((line (read-line port)))
(cond
((eof-object? line) #f)
((regexp-exec pattern line) #t)
(else (loop)))))))
#t)
(find-files dir))))))
(define (description->package repository meta)
"Return the `package' s-expression for an R package published on REPOSITORY
from the alist META, which was derived from the R package's DESCRIPTION file."
@ -209,7 +244,9 @@ from the alist META, which was derived from the R package's DESCRIPTION file."
((? string? url) url)
(_ #f)))
(tarball (with-store store (download-to-store store source-url)))
(sysdepends (map string-downcase (listify meta "SystemRequirements")))
(sysdepends (append
(if (needs-zlib? tarball) '("zlib") '())
(map string-downcase (listify meta "SystemRequirements"))))
(propagate (filter (lambda (name)
(not (member name default-r-packages)))
(lset-union equal?
@ -234,6 +271,11 @@ from the alist META, which was derived from the R package's DESCRIPTION file."
(build-system r-build-system)
,@(maybe-inputs sysdepends)
,@(maybe-inputs (map guix-name propagate) 'propagated-inputs)
,@(if (needs-fortran? tarball)
`((native-inputs (,'quasiquote
,(list "gfortran"
(list 'unquote 'gfortran)))))
'())
(home-page ,(if (string-null? home-page)
(string-append base-url name)
home-page))