def _create_patched_iter(self, filename, itraj, skip=0, stride=1, atom_indices=None):
if self.is_uniform_stride(self.stride):
flen = self._data_source.trajectory_length(itraj=itraj, stride=self.stride, skip=self.skip)
else:
flen = self.ra_trajectory_length(itraj)
return patches.iterload(filename, flen, chunk=self.chunksize, top=self._data_source.featurizer.topology,
skip=skip, stride=stride, atom_indices=atom_indices)
def _create_patched_iter(self,
filename,
skip=0,
stride=1,
atom_indices=None):
return patches.iterload(filename,
chunk=self.chunksize,
top=self._data_source.featurizer.topology,
skip=skip,
stride=stride,
atom_indices=atom_indices)
def _create_patched_iter(self,
filename,
skip=0,
stride=1,
atom_indices=None):
self._logger.debug("opening trajectory \"%s\"" % filename)
return patches.iterload(filename,
chunk=self.chunksize,
top=self._data_source.topfile,
skip=skip,
stride=stride,
atom_indices=atom_indices)
def _create_iter(self, filename, skip=0, stride=1):
return patches.iterload(filename,
chunk=self.chunksize,
top=self.topfile,
skip=skip,
stride=stride)
def _create_iter(self, filename, skip=0, stride=1, atom_indices=None):
return patches.iterload(filename, chunk=self.chunksize,
top=self.topfile, skip=skip, stride=stride, atom_indices=atom_indices)
def _create_iter(self, filename, skip=0, stride=1):
return patches.iterload(filename, chunk=self.chunksize,
top=self.topfile, skip=skip, stride=stride)