Source code for xmipp3.viewers.viewer_normalize_strain

# **************************************************************************
# *
# * Authors:  Carlos Oscar Sanchez Sorzano (coss@cnb.csic.es)
# *
# * Unidad de  Bioinformatica of Centro Nacional de Biotecnologia , CSIC
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# * This program is free software; you can redistribute it and/or modify
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# * GNU General Public License for more details.
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# * along with this program; if not, write to the Free Software
# * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA
# * 02111-1307  USA
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# *  All comments concerning this program package may be sent to the
# *  e-mail address 'scipion@cnb.csic.es'
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from pyworkflow.viewer import ProtocolViewer, DESKTOP_TKINTER
from pwem.viewers import ChimeraView
from pyworkflow.protocol.params import PointerParam, LabelParam

from xmipp3.protocols.protocol_normalize_strain import XmippProtNormalizeStrain


[docs]class XmippNormalizeStrainViewer(ProtocolViewer): """ Visualize the output of protocol volume strain """ _label = 'viewer normalize strain' _targets = [XmippProtNormalizeStrain] _environments = [DESKTOP_TKINTER] def __init__(self, **args): ProtocolViewer.__init__(self, **args) def _defineParams(self, form): form.addSection(label='Visualization') # Select the level to show form.addParam('show', LabelParam, label="Strain calculation to visualize") form.addParam('protToShow', PointerParam, pointerClass='XmippProtVolumeStrain', label="Select protocol") def _getVisualizeDict(self): return {'show': self._viewStrain} def _viewStrain(self, e=None): import os protToShow = self.protToShow.get() protId = protToShow.getObjId() views=[] fnCmd = self.protocol._getPath('%d_result_strain_chimera.cmd'%protId) if os.path.exists(fnCmd): views.append(ChimeraView(fnCmd)) fnCmd = self.protocol._getPath('%d_result_localrot_chimera.cmd'%protId) if os.path.exists(fnCmd): views.append(ChimeraView(fnCmd)) fnCmd = protToShow._getPath('result_morph_chimera.cmd') if os.path.exists(fnCmd): views.append(ChimeraView(fnCmd)) return views