def _showVolumesChimera(self):
""" Create a chimera script to visualize selected volumes. """
volumes = self._getVolumeNames()
if len(volumes) > 1:
cmdFile = self.protocol._getExtraPath('chimera_volumes.cmd')
f = open(cmdFile, 'w+')
for vol in volumes:
localVol = relpath(vol, self.protocol._getExtraPath())
if exists(vol):
f.write("open %s\n" % localVol)
f.write('tile\n')
f.close()
view = em.ChimeraView(cmdFile)
else:
from pyworkflow.em.viewer import ChimeraClientView
#view = CommandView('xmipp_chimera_client --input "%s" --mode projector 256 &' % volumes[0])
view = ChimeraClientView(volumes[0], showProjection=False)
return [view]
def _showVolumesChimera(self):
""" Create a chimera script to visualize selected volumes. """
volumes = self._getVolumeNames()
if len(volumes) > 1:
cmdFile = self.protocol._getExtraPath('chimera_volumes.cmd')
f = open(cmdFile, 'w+')
for volFn in volumes:
# We assume that the chimera script will be generated
# at the same folder than relion volumes
vol = volFn.replace(':mrc', '')
localVol = os.path.basename(vol)
if exists(vol):
f.write("open %s\n" % localVol)
f.write('tile\n')
f.close()
view = em.ChimeraView(cmdFile)
else:
view = em.ChimeraClientView(volumes[0])
return [view]
def _showVolumesChimera(self):
""" Create a chimera script to visualize selected volumes. """
volumes = self.getVolumeNames()
if len(volumes) > 1:
cmdFile = self._getFinalPath('chimera_volumes.cmd')
f = open(cmdFile, 'w+')
for vol in volumes:
# We assume that the chimera script will be generated
# at the same folder than spider volumes
localVol = os.path.basename(vol)
if os.path.exists(vol):
f.write("open spider:%s\n" % localVol)
f.write('tile\n')
f.close()
view = em.ChimeraView(cmdFile)
else:
#view = CommandView('xmipp_chimera_client --input "%s" --mode projector 256 &' % volumes[0])
#view = em.ChimeraClientView(volumes[0])
view = em.ChimeraClientView(
volumes[0], showProjection=True
) #, angularDistFile=sqliteFn, spheresDistance=radius)
return [view]