def _visualize(self, obj, **args):
if isinstance(obj, EmanProtBoxing):
coords = obj.getCoords()
if coords:
XmippViewer._visualize(self, obj.outputCoordinates)
elif isinstance(obj, EmanProtInitModel):
obj = obj.outputVolumes
fn = obj.getFileName()
labels = 'id enabled comment _filename '
objCommands = "'%s' '%s' '%s'" % (OBJCMD_CLASSAVG_PROJS,
OBJCMD_PROJS, OBJCMD_INITVOL)
self._views.append(
vw.ObjectView(
self._project,
obj.strId(),
fn,
viewParams={
showj.MODE: showj.MODE_MD,
showj.ORDER: labels,
showj.VISIBLE: labels,
showj.RENDER: '_filename',
showj.OBJCMDS: objCommands
},
))
def createScipionPartView(self, filename, viewParams={}):
inputParticlesId = self.protocol.inputParticles.get().strId()
labels = 'enabled id _size _filename _transform._matrix'
viewParams = {showj.ORDER:labels,
showj.VISIBLE: labels, showj.RENDER:'_filename',
'labels': 'id',
}
return vw.ObjectView(self._project,
self.protocol.strId(), filename, other=inputParticlesId,
env=self._env, viewParams=viewParams)
def _createVolumesSqlite(self):
""" Write an sqlite with all volumes selected for visualization. """
path = self.protocol._getExtraPath('eman2_viewer_volumes.sqlite')
samplingRate = self.protocol.inputParticles.get().getSamplingRate()
vols = self._getVolumeNames()
files = []
for vol in vols:
if os.path.exists(vol):
files.append(vol)
self.createVolumesSqlite(files, path, samplingRate)
return [vw.ObjectView(self._project, self.protocol.strId(), path)]