zhangyiss/spack
1
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases Wiki Activity

added py-multiqc and dependencies (#4381)

Browse Source 
* added py-multiqc and dependencies

* added requested changes per #4381

* added colormath dependency per https://github.com/jsvine/spectra/blob/master/requirements.txt

* py-multiqc changes

* py-multiqc does not need colormath - spectra does
This commit is contained in:
Douglas Duckworth 2017-06-26 17:05:15 -04:00 committed by Adam J. Stewart
parent 575ee41413
commit 351f0e2e16
4 changed files with 160 additions and 0 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

38
var/spack/repos/builtin/packages/py-colormath/package.py Normal file
View File

@ -0,0 +1,38 @@
##############################################################################
# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-647188
#
# For details, see https://github.com/llnl/spack
# Please also see the LICENSE file for our notice and the LGPL.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License (as
# published by the Free Software Foundation) version 2.1, February 1999.
#
# This program is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
# conditions of the GNU Lesser General Public License for more details.
#
# You should have received a copy of the GNU Lesser General Public
# License along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *
class PyColormath(PythonPackage):
"""Color math and conversion library."""
homepage = "https://pypi.python.org/pypi/colormath/2.1.1"
url = "https://pypi.io/packages/source/c/colormath/colormath-2.1.1.tar.gz"
version('2.1.1', '10a0fb17e3c24363d0e1a3f2dccaa33b')
depends_on('py-setuptools', type='build')
depends_on('py-numpy', type=('build', 'run'))
depends_on('py-networkx', type=('build', 'run'))

37
var/spack/repos/builtin/packages/py-lzstring/package.py Normal file
View File

@ -0,0 +1,37 @@
##############################################################################
# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-647188
#
# For details, see https://github.com/llnl/spack
# Please also see the LICENSE file for our notice and the LGPL.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License (as
# published by the Free Software Foundation) version 2.1, February 1999.
#
# This program is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
# conditions of the GNU Lesser General Public License for more details.
#
# You should have received a copy of the GNU Lesser General Public
# License along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *
class PyLzstring(PythonPackage):
"""lz-string for python."""
homepage = "https://github.com/gkovacs/lz-string-python"
url = "https://pypi.io/packages/source/l/lzstring/lzstring-1.0.3.tar.gz"
version('1.0.3', '1c636543484629020a26432740f81443')
depends_on('py-setuptools', type='build')
depends_on('py-future', type=('build', 'run'))

48
var/spack/repos/builtin/packages/py-multiqc/package.py Normal file
View File

@ -0,0 +1,48 @@
##############################################################################
# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-647188
#
# For details, see https://github.com/llnl/spack
# Please also see the LICENSE file for our notice and the LGPL.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License (as
# published by the Free Software Foundation) version 2.1, February 1999.
#
# This program is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
# conditions of the GNU Lesser General Public License for more details.
#
# You should have received a copy of the GNU Lesser General Public
# License along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *
class PyMultiqc(PythonPackage):
"""MultiQC is a tool to aggregate bioinformatics results across many
samples into a single report. It is written in Python and contains modules
for a large number of common bioinformatics tools."""
homepage = "https://multiqc.info"
url = "https://pypi.io/packages/source/m/multiqc/multiqc-1.0.tar.gz"
version('1.0', '0b7310b3f75595e5be8099fbed2d2515')
depends_on('python@2.7:')
depends_on('py-setuptools', type='build')
depends_on('py-click', type=('build', 'run'))
depends_on('py-jinja2@2.9:', type=('build', 'run'))
depends_on('py-lzstring', type=('build', 'run'))
depends_on('py-future@0.14.1:', type=('build', 'run'))
depends_on('py-spectra', type=('build', 'run'))
depends_on('py-matplotlib', type=('build', 'run'))
depends_on('py-numpy', type=('build', 'run'))
depends_on('py-pyyaml', type=('build', 'run'))
depends_on('py-simplejson', type=('build', 'run'))

37
var/spack/repos/builtin/packages/py-spectra/package.py Normal file
View File

@ -0,0 +1,37 @@
##############################################################################
# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC.
# Produced at the Lawrence Livermore National Laboratory.
#
# This file is part of Spack.
# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved.
# LLNL-CODE-647188
#
# For details, see https://github.com/llnl/spack
# Please also see the LICENSE file for our notice and the LGPL.
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License (as
# published by the Free Software Foundation) version 2.1, February 1999.
#
# This program is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and
# conditions of the GNU Lesser General Public License for more details.
#
# You should have received a copy of the GNU Lesser General Public
# License along with this program; if not, write to the Free Software
# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
##############################################################################
from spack import *
class PySpectra(PythonPackage):
"""Color scales and color conversion made easy for Python."""
homepage = "https://pypi.python.org/pypi/spectra/0.0.8"
url = "https://pypi.io/packages/source/s/spectra/spectra-0.0.8.tar.gz"
version('0.0.8', '83020b29e584389f24c7720f38f0136c')
depends_on('py-setuptools', type='build')
depends_on('py-colormath', type=('build', 'run'))