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bamutil: updating to 1.0.15 (#30623)

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* bamutil: updating to 1.0.15

* bamutil: switching to github archive
This commit is contained in:
snehring 2022-05-11 17:12:32 -05:00 committed by GitHub
parent d2fc7b9f7d
commit 66d3648200
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1 changed files with 18 additions and 8 deletions
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26
var/spack/repos/builtin/packages/bamutil/package.py
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@ -13,17 +13,18 @@ class Bamutil(MakefilePackage):
"""
homepage = "https://genome.sph.umich.edu/wiki/BamUtil"
url = "https://genome.sph.umich.edu/w/images/7/70/BamUtilLibStatGen.1.0.13.tgz"
url = "https://github.com/statgen/bamUtil/archive/refs/tags/v1.0.15.tar.gz"
git = "https://github.com/statgen/bamUtil.git"
maintainers = ['snehring']
version('1.0.13', sha256='16c1d01c37d1f98b98c144f3dd0fda6068c1902f06bd0989f36ce425eb0c592b')
version('1.0.15', sha256='24ac4bdb81eded6e33f60dba85ec3d32ebdb06d42f75df775c2632bbfbd8cce9')
version('1.0.13', sha256='16c1d01c37d1f98b98c144f3dd0fda6068c1902f06bd0989f36ce425eb0c592b',
url='https://genome.sph.umich.edu/w/images/7/70/BamUtilLibStatGen.1.0.13.tgz')
depends_on('zlib', type=('build', 'link'))
depends_on('zlib')
depends_on('git', type='build', when='@1.0.15:')
# Looks like this will be fixed in 1.0.14.
# https://github.com/statgen/libStatGen/issues/9
patch('libstatgen-issue-9.patch', when='@1.0.13:')
# These are fixed in the standalone libStatGen,
# but bamutil@1.0.13 embeds its own copy, so fix 'em here.
patch('libstatgen-issue-9.patch', when='@1.0.13')
patch('libstatgen-issue-19.patch', when='@1.0.13')
patch('libstatgen-issue-17.patch', when='@1.0.13')
patch('libstatgen-issue-7.patch', when='@1.0.13')
@ -31,6 +32,15 @@ class Bamutil(MakefilePackage):
parallel = False
@when('@1.0.15')
def edit(self, spec, prefix):
filter_file('git://', 'https://', 'Makefile.inc', String=True)
@when('@1.0.15:')
def build(self, spec, prefix):
make('cloneLib')
make()
@property
def install_targets(self):
return ['install', 'INSTALLDIR={0}'.format(self.prefix.bin)]