Source code for tomo.protocols.protocol_split_evenodd_subtomos

# -*- coding: utf-8 -*-
# **************************************************************************
# *
# * Authors:     Estrella Fernandez Gimenez (me.fernandez@cnb.csic.es)
# *
# *  BCU, Centro Nacional de Biotecnologia, CSIC
# *
# *
# * 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 2 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'
# *
# **************************************************************************

from pwem.protocols import EMProtocol
from pyworkflow import BETA
from pyworkflow.protocol.params import PointerParam
from tomo.objects import SetOfTomograms
from tomo.protocols import ProtTomoBase


[docs]class ProtSplitEvenOddTomoSet(EMProtocol, ProtTomoBase): """ Protocol to split set of tomograms or subtomograms in even/odd sets by element id. """ _label = 'split even/odd tomos/subtomos' _devStatus = BETA # -------------------------- DEFINE param functions ----------------------- def _defineParams(self, form): form.addSection(label='Input') form.addParam('inputSet', PointerParam, pointerClass='SetOfSubTomograms, SetOfTomograms', label="Set to split", help='Select the set of tomograms or subtomograms that you ' 'want to split in even/odd sets.') # -------------------------- INSERT steps functions ----------------------- def _insertAllSteps(self): self._insertFunctionStep('createOutputStep') # -------------------------- STEPS functions ------------------------------
[docs] def createOutputStep(self): inputSet = self.inputSet.get() if isinstance(inputSet.getFirstItem(), SetOfTomograms): evenSet = self._createSetOfTomograms(suffix='_even') oddSet = self._createSetOfTomograms(suffix='_odd') else: evenSet = self._createSetOfSubTomograms(suffix='_even') oddSet = self._createSetOfSubTomograms(suffix='_odd') evenSet.copyInfo(inputSet) oddSet.copyInfo(inputSet) for element in inputSet: if element.getObjId() % 2 == 0: evenSet.append(element) else: oddSet.append(element) self._defineOutputs(outputset_even=evenSet) self._defineSourceRelation(inputSet, evenSet) self._defineOutputs(outputset_odd=oddSet) self._defineSourceRelation(inputSet, oddSet)
# -------------------------- INFO functions ------------------------------- def _summary(self): if not self.isFinished(): return["Output sets not ready yet."] else: return["We have split the input set in even and odd sets."]