From ac68ed8fa8319d2792eefaf81f8d8a8ae230ea1c Mon Sep 17 00:00:00 2001
From: snehring <snehring@users.noreply.github.com>
Date: Mon, 15 Oct 2018 14:43:02 -0500
Subject: [PATCH] redundans: replace incorrect hard-coded path for
sspace-standard (#9483)
---
var/spack/repos/builtin/packages/redundans/package.py | 5 +++++
1 file changed, 5 insertions(+)
diff --git a/var/spack/repos/builtin/packages/redundans/package.py b/var/spack/repos/builtin/packages/redundans/package.py
index ea3bea2c17..2364ce082b 100644
--- a/var/spack/repos/builtin/packages/redundans/package.py
+++ b/var/spack/repos/builtin/packages/redundans/package.py
@@ -46,7 +46,12 @@ class Redundans(Package):
depends_on('snap-berkeley@1.0beta.18:', type=('build', 'run'))
def install(self, spec, prefix):
+ sspace_location = join_path(spec['sspace-standard'].prefix,
+ 'SSPACE_Standard_v3.0.pl')
mkdirp(prefix.bin)
+ filter_file(r'sspacebin = os.path.join(.*)$',
+ 'sspacebin = \'' + sspace_location + '\'',
+ 'redundans.py')
install('redundans.py', prefix.bin)
with working_dir('bin'):
install('fasta2homozygous.py', prefix.bin)
--
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