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Cache timesteps and add frame rate property

feature/load_slices
Ruben Verweij 8 years ago
parent
commit
cbdec0fdc9
1 changed files with 29 additions and 1 deletions
  1. +29
    -1
      nd2reader/reader.py

+ 29
- 1
nd2reader/reader.py View File

@ -27,6 +27,9 @@ class ND2Reader(FramesSequenceND):
# Setup the axes # Setup the axes
self._setup_axes() self._setup_axes()
# Other properties
self._timesteps = None
@classmethod @classmethod
def class_exts(cls): def class_exts(cls):
"""Let PIMS open function use this reader for opening .nd2 files """Let PIMS open function use this reader for opening .nd2 files
@ -89,6 +92,27 @@ class ND2Reader(FramesSequenceND):
""" """
return self._dtype return self._dtype
@property
def timesteps(self):
"""Get the timesteps of the experiment
Returns:
np.ndarray: an array of times in milliseconds.
"""
if self._timesteps is None:
return self.get_timesteps()
return self._timesteps
@property
def frame_rate(self):
"""The (average) frame rate
Returns:
float: the (average) frame rate in frames per second
"""
return 1000. / np.mean(np.diff(self.timesteps))
def _get_metadata_property(self, key, default=None): def _get_metadata_property(self, key, default=None):
if self.metadata is None: if self.metadata is None:
return default return default
@ -149,6 +173,9 @@ class ND2Reader(FramesSequenceND):
np.ndarray: an array of times in milliseconds. np.ndarray: an array of times in milliseconds.
""" """
if self._timesteps is not None:
return self._timesteps
timesteps = np.array([]) timesteps = np.array([])
current_time = 0.0 current_time = 0.0
for loop in self.metadata['experiment']['loops']: for loop in self.metadata['experiment']['loops']:
@ -165,4 +192,5 @@ class ND2Reader(FramesSequenceND):
current_time += loop['duration'] current_time += loop['duration']
# if experiment did not finish, number of timesteps is wrong. Take correct amount of leading timesteps. # if experiment did not finish, number of timesteps is wrong. Take correct amount of leading timesteps.
return timesteps[:self.metadata['num_frames']]
self._timesteps = timesteps[:self.metadata['num_frames']]
return self._timesteps

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