Change setup.cfg so that the bundled zlib and bzip2 are not used. This cannot
currently be achieved using "--library z,bz2" as instructed in the setup.py.
diff --git a/setup.cfg b/setup.cfg
index c054092..080992e 100644
--- a/setup.cfg
+++ b/setup.cfg
@@ -1,7 +1,7 @@
[build_ext]
define = SEQAN_HAS_BZIP2,SEQAN_HAS_ZLIB
undef = NO_UNIQUE_RC
-# libraries = z,bz2
+libraries = z,bz2
## if using system libraries
include-dirs = lib:third-party/zlib:third-party/bzip2:third-party/seqan/core/include:third-party/smhasher
# include-dirs = lib
href='/guix/'>guix
;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2014, 2015, 2016, 2017, 2018 Ludovic Courtès <ludo@gnu.org>
;;;
;;; This file is part of GNU Guix.
;;;
;;; GNU Guix is free software; you can redistribute it and/or modify it
;;; under the terms of the GNU General Public License as published by
;;; the Free Software Foundation; either version 3 of the License, or (at
;;; your option) any later version.
;;;
;;; GNU Guix is distributed in the hope that it will be useful, but
;;; WITHOUT ANY WARRANTY; without even the implied warranty of
;;; MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
;;; GNU General Public License for more details.
;;;
;;; You should have received a copy of the GNU General Public License
;;; along with GNU Guix. If not, see <http://www.gnu.org/licenses/>.
;;;
;;; Check whether important binaries are available.
;;;
(use-modules (guix store)
(guix grafts)
(guix packages)
(guix derivations)
(guix ui)
(gnu packages commencement)
(ice-9 match)
(srfi srfi-1)
(srfi srfi-26))
(define (final-inputs store system)
"Return the list of outputs directories of the final inputs for SYSTEM."
(append-map (match-lambda
((or (name package) (name package _))
(let ((drv (package-derivation store package system)))
;; Libc's 'debug' output refers to gcc-cross-boot0, but it's
;; hard to avoid, so we tolerate it. This should be the
;; only exception. Likewise, 'bash:include' depends on
;; bootstrap-binaries via its 'Makefile.inc' (FIXME).
(filter-map (match-lambda
(("debug" . directory)
(if (string=? "glibc" (package-name package))
#f
directory))
(("include" . directory)
(if (string=? "bash" (package-name package))
#f
directory))
((_ . directory) directory))
(derivation->output-paths drv)))))
%final-inputs))
(define (assert-valid-substitute substitute)
"Make sure SUBSTITUTE does not refer to any bootstrap inputs, and bail out
if it does."
(let ((references (substitutable-references substitute)))
(when (any (cut string-contains <> "boot") references)
(leave (G_ "'~a' refers to bootstrap inputs: ~s~%")
(substitutable-path substitute) references))))
(define (test-final-inputs store system)
"Check whether the final inputs for SYSTEM are clean---i.e., they don't
refer to the bootstrap tools."
(format #t "checking final inputs for '~a'...~%" system)
(let* ((inputs (final-inputs store system))
(available (substitutable-path-info store inputs)))
(for-each (lambda (dir)
(unless (find (lambda (substitute)
(string=? (substitutable-path substitute)
dir))
available)
(leave (G_ "~a (system: ~a) has no substitute~%")
dir system)))
inputs)
(for-each assert-valid-substitute available)))
;; Entry point.
(with-store store
(parameterize ((%graft? #f))
(set-build-options store #:use-substitutes? #t)
(for-each (cut test-final-inputs store <>)
%cuirass-supported-systems)))