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biobambam2: fix test scripts to use installed binaries (#45609)

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Tamara Dahlgren 2024-08-07 02:43:23 -07:00 committed by GitHub
parent 2106a2be26
commit 4584d85ca6
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1 changed files with 8 additions and 0 deletions
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8
var/spack/repos/builtin/packages/biobambam2/package.py
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@ -3,6 +3,8 @@
# #
# SPDX-License-Identifier: (Apache-2.0 OR MIT) # SPDX-License-Identifier: (Apache-2.0 OR MIT)
import os
from spack.package import * from spack.package import *
@ -38,6 +40,12 @@ def cache_test_sources(self):
install test subdirectory for use during `spack test run`.""" install test subdirectory for use during `spack test run`."""
self.cache_extra_test_sources(self.test_src_dir) self.cache_extra_test_sources(self.test_src_dir)
# Fix test scripts to run installed binaries
scripts_dir = join_path(install_test_root(self), self.test_src_dir)
for path in os.listdir(scripts_dir):
if path.endswith(".sh"):
filter_file(r"../src/", r"", join_path(scripts_dir, path))
def test_short_sort(self): def test_short_sort(self):
"""run testshortsort.sh to check alignments sorted by coordinate""" """run testshortsort.sh to check alignments sorted by coordinate"""
test_dir = join_path(self.test_suite.current_test_cache_dir, self.test_src_dir) test_dir = join_path(self.test_suite.current_test_cache_dir, self.test_src_dir)