Source code for cryoef

# **************************************************************************
# *
# * Authors:     Grigory Sharov (gsharov@mrc-lmb.cam.ac.uk)
# *
# * MRC Laboratory of Molecular Biology (MRC-LMB)
# *
# * This program is free software; you can redistribute it and/or modify
# * it under the terms of the GNU General Public License as published by
# * the Free Software Foundation; either version 3 of the License, or
# * (at your option) any later version.
# *
# * 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
# * GNU General Public License for more details.
# *
# * You should have received a copy of the GNU 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
# *
# *  All comments concerning this program package may be sent to the
# *  e-mail address 'scipion@cnb.csic.es'
# *
# **************************************************************************

import os

import pwem
from pyworkflow.utils import Environ

from cryoef.constants import CRYOEF_HOME, V1_1_0


__version__ = '3.0.11'
_logo = "cryoEF_logo.png"
_references = ['Naydenova2017']


[docs]class Plugin(pwem.Plugin): _homeVar = CRYOEF_HOME _pathVars = [CRYOEF_HOME] _supportedVersions = [V1_1_0] _url = "https://github.com/scipion-em/scipion-em-cryoef" @classmethod def _defineVariables(cls): cls._defineEmVar(CRYOEF_HOME, 'cryoEF-1.1.0')
[docs] @classmethod def getEnviron(cls): """ Setup the environment variables needed to launch cryoEF. """ environ = Environ(os.environ) environ.update({'PATH': cls.getHome('bin')}, position=Environ.BEGIN) return environ
[docs] @classmethod def getProgram(cls): """ Return the program binary that will be used. """ cmd = cls.getHome('bin', 'cryoEF') return str(cmd)
[docs] @classmethod def defineBinaries(cls, env): env.addPackage('cryoEF', version='1.1.0', tar='cryoEF_v1.1.0.tgz', default=True)