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Read in complex 2dseq #14

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Read in complex 2dseq #14

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d7f2657
added option to read in complex reconstructed 2dseq files. for this, …
LucaNagel Mar 20, 2023
0584952
added option to load real, imaginary, phase and IR data as well
LucaNagel Mar 20, 2023
e9a91d2
it seems to be necessary to add a squeeze to avoid a singleton dimens…
LucaNagel Mar 21, 2023
469e4f2
had to remove the print statements
LucaNagel Mar 21, 2023
f0f1e3d
had to remove the print statements
LucaNagel Mar 21, 2023
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6 changes: 6 additions & 0 deletions brukerapi/config/properties_2dseq_core.json
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Original file line number Diff line number Diff line change
Expand Up @@ -151,6 +151,12 @@
"conditions": []
}
],
"reco_type": [
{
"cmd": "#VisuCoreFrameType",
"conditions": []
}
],
"dim_type": [
{
"cmd": "#VisuCoreDimDesc.list + ['spatial',] + #VisuFGOrderDesc.sub_list(1)",
Expand Down
29 changes: 23 additions & 6 deletions brukerapi/schemas.py
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Original file line number Diff line number Diff line change
Expand Up @@ -42,7 +42,8 @@
"num_slice_packages",
"slope",
"offset",
"dim_type"
"dim_type",
"reco_type"
],
"rawdata": [
"numpy_dtype",
Expand Down Expand Up @@ -553,25 +554,40 @@ def scale(self):
self._dataset.data = np.reshape(self._dataset.data, self._dataset.shape_final, order='F')

def deserialize(self, data, layouts):

# scale
if self._dataset._state['scale']:
data = self._scale_frames(data, layouts, 'FW')

# frames -> frame_groups
data = self._frames_to_framegroups(data, layouts)

if hasattr(self._dataset, 'reco_type'):
# complex reco:
if self._dataset.reco_type[0] == 'REAL_IMAGE' and self._dataset.reco_type[1] == 'IMAGINARY_IMAGE':
data = np.squeeze(data[...,::2] + 1j * data[...,1::2])
elif self._dataset.reco_type[0] == 'IMAGINARY_IMAGE' and self._dataset.reco_type[1] == 'REAL_IMAGE':
data = np.squeeze(data[...,1::2] + 1j * data[...,::2])
# real reco:
elif self._dataset.reco_type[0] == 'REAL_IMAGE':
pass
# imaginary reco:
elif self._dataset.reco_type[0] == 'IMAGINARY_IMAGE':
pass
# imaginary reco:
elif self._dataset.reco_type[0] == 'PHASE_IMAGE':
pass
# standard (magntitude) reco:
elif self._dataset.reco_type == ['MAGNITUDE_IMAGE']:
pass
else:
pass
return data

def _scale_frames(self, data, layouts, dir):
"""

:param data:
:param layouts:
:param dir:
:return:
"""

# dataset is created with scale state set to False
if self._dataset._state['scale'] is False:
return data
Expand All @@ -593,6 +609,7 @@ def _scale_frames(self, data, layouts, dir):
if dir == 'BW':
data = np.round(data)


return data

def _frames_to_framegroups(self, data, layouts, mask=None):
Expand Down