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MetaArray: make it possible to append multiple axis values

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Example use case: taking an image stack where each frame has a time value AND a position. Previously we could only append new time values.
This commit is contained in:
Luke Campagnola 2017-09-28 09:09:17 -07:00
parent f627a6a447
commit 2a56435475
1 changed files with 13 additions and 9 deletions
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22
pyqtgraph/metaarray/MetaArray.py
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@ -748,7 +748,6 @@ class MetaArray(object):
else: else:
fd.seek(0) fd.seek(0)
meta = MetaArray._readMeta(fd) meta = MetaArray._readMeta(fd)
if not kwargs.get("readAllData", True): if not kwargs.get("readAllData", True):
self._data = np.empty(meta['shape'], dtype=meta['type']) self._data = np.empty(meta['shape'], dtype=meta['type'])
if 'version' in meta: if 'version' in meta:
@ -1031,6 +1030,7 @@ class MetaArray(object):
"""Write this object to a file. The object can be restored by calling MetaArray(file=fileName) """Write this object to a file. The object can be restored by calling MetaArray(file=fileName)
opts: opts:
appendAxis: the name (or index) of the appendable axis. Allows the array to grow. appendAxis: the name (or index) of the appendable axis. Allows the array to grow.
appendKeys: a list of keys (other than "values") for metadata to append to on the appendable axis.
compression: None, 'gzip' (good compression), 'lzf' (fast compression), etc. compression: None, 'gzip' (good compression), 'lzf' (fast compression), etc.
chunks: bool or tuple specifying chunk shape chunks: bool or tuple specifying chunk shape
""" """
@ -1097,7 +1097,6 @@ class MetaArray(object):
'compression': None 'compression': None
} }
## set maximum shape to allow expansion along appendAxis ## set maximum shape to allow expansion along appendAxis
append = False append = False
if appAxis is not None: if appAxis is not None:
@ -1125,14 +1124,19 @@ class MetaArray(object):
data[tuple(sl)] = self.view(np.ndarray) data[tuple(sl)] = self.view(np.ndarray)
## add axis values if they are present. ## add axis values if they are present.
axKeys = ["values"]
axKeys.extend(opts.get("appendKeys", []))
axInfo = f['info'][str(ax)] axInfo = f['info'][str(ax)]
if 'values' in axInfo: for key in axKeys:
v = axInfo['values'] if key in axInfo:
v2 = self._info[ax]['values'] v = axInfo[key]
shape = list(v.shape) v2 = self._info[ax][key]
shape[0] += v2.shape[0] shape = list(v.shape)
v.resize(shape) shape[0] += v2.shape[0]
v[-v2.shape[0]:] = v2 v.resize(shape)
v[-v2.shape[0]:] = v2
else:
raise TypeError('Cannot append to axis info key "%s"; this key is not present in the target file.' % key)
f.close() f.close()
else: else:
f = h5py.File(fileName, 'w') f = h5py.File(fileName, 'w')