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02/03: gnu: trim-galore: Fix test for Python.
From: |
guix-commits |
Subject: |
02/03: gnu: trim-galore: Fix test for Python. |
Date: |
Wed, 27 Mar 2019 06:32:54 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 5f1e31094d390a85bb91e8df1efbcb2dd2e39cf4
Author: Ricardo Wurmus <address@hidden>
Date: Wed Mar 27 11:28:38 2019 +0100
gnu: trim-galore: Fix test for Python.
* gnu/packages/bioinformatics.scm (trim-galore)[arguments]: Replace
"configure" phase to skip ill-advised test for Python.
---
gnu/packages/bioinformatics.scm | 10 +++++++++-
1 file changed, 9 insertions(+), 1 deletion(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 1f29914..3f94ef5 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -10896,7 +10896,15 @@ with narrow binding events such as transcription
factor ChIP-seq.")
`(#:tests? #f ; no tests
#:phases
(modify-phases %standard-phases
- (delete 'configure)
+ (replace 'configure
+ (lambda _
+ ;; Trim Galore tries to figure out what version of Python
+ ;; cutadapt is using by looking at the shebang. Of course that
+ ;; doesn't work, because cutadapt is wrapped in a shell script.
+ (substitute* "trim_galore"
+ (("my \\$python_return.*")
+ "my $python_return = \"Python 3.999\";\n"))
+ #t))
(delete 'build)
(add-after 'unpack 'hardcode-tool-references
(lambda* (#:key inputs #:allow-other-keys)