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-rw-r--r--var/spack/repos/builtin/packages/kallisto/package.py29
1 files changed, 29 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/kallisto/package.py b/var/spack/repos/builtin/packages/kallisto/package.py
index 337b50f188..d33bd970a2 100644
--- a/var/spack/repos/builtin/packages/kallisto/package.py
+++ b/var/spack/repos/builtin/packages/kallisto/package.py
@@ -13,8 +13,37 @@ class Kallisto(CMakePackage):
homepage = "http://pachterlab.github.io/kallisto"
url = "https://github.com/pachterlab/kallisto/archive/v0.43.1.tar.gz"
+ version('0.46.2', sha256='c447ca8ddc40fcbd7d877d7c868bc8b72807aa8823a8a8d659e19bdd515baaf2')
version('0.43.1', sha256='7baef1b3b67bcf81dc7c604db2ef30f5520b48d532bf28ec26331cb60ce69400')
depends_on('zlib')
depends_on('hdf5')
depends_on('mpich')
+
+ # htslib isn't built in time to be used....
+ parallel = False
+
+ # v0.44.0 vendored a copy of htslib and uses auto* to build
+ # its configure script.
+ depends_on('autoconf', type='build', when='@0.44.0:')
+ depends_on('automake', type='build', when='@0.44.0:')
+ depends_on('libtool', type='build', when='@0.44.0:')
+ depends_on('m4', type='build', when='@0.44.0:')
+
+ # Including '-DCMAKE_VERBOSE_MAKEFILE:BOOL=ON' in the cmake args
+ # causes bits of cmake's output to end up in the autoconf-generated
+ # configure script.
+ # See https://github.com/spack/spack/issues/15274 and
+ # https://github.com/pachterlab/kallisto/issues/253
+ @property
+ def std_cmake_args(self):
+ """Call the original std_cmake_args and then filter the verbose
+ setting.
+ """
+ a = super(Kallisto, self).std_cmake_args
+ if (self.spec.version >= Version('0.44.0')):
+ args = [i for i in a if i != '-DCMAKE_VERBOSE_MAKEFILE:BOOL=ON']
+ else:
+ args = a
+
+ return args