From 5f1e31094d390a85bb91e8df1efbcb2dd2e39cf4 Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Wed, 27 Mar 2019 11:28:38 +0100 Subject: [PATCH] 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 1f2991418a..3f94ef54cd 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -10896,7 +10896,15 @@ (define-public trim-galore `(#: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)