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WIP: adding Philips XML/REC support#683

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64ed188
add Philips XML/REC reader.
grlee77Oct 18, 2018
1ff1826
add XMLRECImage support to imageclasses.py
grlee77Oct 18, 2018
df2751e
Assign an enumerated value of -1 in the PAR image_defs header for unr…
grlee77Oct 19, 2018
8c405c1
expand enums_dict using empirically determined values
grlee77Oct 19, 2018
a4636b2
Fix reading strings into image_defs when dtype_format='xml'
grlee77Oct 19, 2018
570a7ed
XMLRECImage: file extensions should be specified in lower case
grlee77Oct 19, 2018
bbeb710
loading from .REC: special case to find .xml when .PAR not present
grlee77Oct 19, 2018
a7a9edc
remove explicit mention of PAR from warning/errors that could also oc…
grlee77Oct 19, 2018
ed43e97
Add XML/REC support to parrec2nii.py
grlee77Oct 19, 2018
5fa6810
refactor/simplify. Do not convert to PAR/REC style names
grlee77Oct 19, 2018
10bf7cc
remove permit_truncated restriction
grlee77Oct 19, 2018
8d62119
minor cleanup
grlee77Oct 19, 2018
d7bf693
XMLRECImage: fix for .REC expected case mismatch
grlee77Oct 22, 2018
fd88ccd
fix misnamed key within strict_sort
grlee77Oct 22, 2018
7048640
fix for conversion of DWI scans where only the trace was retained
grlee77Oct 22, 2018
4068548
fix bug in conversion of Boolean entries from string such as 'N' and 'Y'
grlee77Oct 22, 2018
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fix misnamed key within strict_sort
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@grlee77
grlee77 committedOct 22, 2018
commitfd88ccd65530f389a7b6daa96b3147502bc4b0e4
4 changes: 2 additions & 2 deletionsnibabel/xmlrec.py
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Original file line numberDiff line numberDiff line change
Expand Up@@ -639,7 +639,7 @@ def _strict_sort_order(self):
- image_defs['Dynamicr'] # repetition
- image_defs['Label Type'] # ASL tag/control
- image_defs['BValue'] # diffusion b value
- image_defs['GradOrientation'] # diffusion directoin
- image_defs['GradOrient'] # diffusion directoin
- image_defs['Phase'] # cardiac phase
- image_defs['Echo'] # echo
- image_defs['Slice'] # slice
Expand All@@ -666,7 +666,7 @@ def _strict_sort_order(self):
echos = idefs['Echo']
image_type = idefs['Type']
asl_keys = (idefs['Label Type'], )
diffusion_keys = (idefs['BValue'], idefs['GradOrientation'])
diffusion_keys = (idefs['BValue'], idefs['GradOrient'])

# initial sort (last key is highest precedence)
keys = (index_nos, slice_nos, echos, phases) + \
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