sct-pipeline spine-park issues

sct-pipeline / spine-park

Pipeline for multicontrast analysis in PD patients

MIT License

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issues

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Issue with template warping onto chunk 3 of dwi images

#51 Kaonashi22 opened 2 months ago
2
Error with dwi processing

#50 Kaonashi22 closed 2 months ago
5
Accommodate subjects with missing vertebral levels on anatomical scan

#49 jcohenadad closed 2 months ago
5
Comment clarification: Register template->dwi

#48 valosekj closed 2 months ago
1
Possible issue with registration?

#47 jcohenadad closed 2 months ago
4
sct_dmri_moco - cropped vs non-cropped image

#46 valosekj opened 3 months ago
3
TypeError: can't multiply sequence by non-int of type 'float'

#45 Kaonashi22 closed 2 months ago
17
KeyError: 'Filename' in DWI processing

#44 jcohenadad closed 3 months ago
6
DWI folder not found

#43 Kaonashi22 closed 3 months ago
2
How is the statistical analysis conducted?

#42 jcohenadad closed 3 months ago
10
Create function to aggregate DWI metrics across chunks

#41 jcohenadad closed 3 months ago
0
Wrong path to derivatives of dwi masks

#40 Kaonashi22 closed 3 months ago
1
sct_qc: error: argument -p: invalid choice: 'sct_deepseg'

#39 Kaonashi22 closed 3 months ago
2
Issue with the segmentation of dwi images `sub-DEV205Sujet09`

#38 Kaonashi22 closed 3 months ago
7
`sub-LD214`: IndexError: list index out of range

#37 jcohenadad closed 3 months ago
1
`sub-LC164`: IndexError: list index out of range

#36 jcohenadad closed 3 months ago
6
`sct_extract_metric` outputs empty lines

#35 jcohenadad closed 4 months ago
1
Data are not fully BIDS compliant

#34 jcohenadad opened 4 months ago
0
Cropped edges in registration to the template

#33 jcohenadad closed 3 months ago
15
Wrong use of disc labels

#32 jcohenadad closed 4 months ago
0
Add postprocessing functionality for the new contrast-agnostic spinal cord segmentation model

#31 Kaonashi22 opened 5 months ago
20
Memory issue on McGill servers to run processing pipeline

#30 jcohenadad opened 5 months ago
0
Label file should be changed in the script

#29 jcohenadad closed 5 months ago
2
Introduce contrast-agnostic segmentation in the pipeline

#28 jcohenadad closed 5 months ago
19
Add instructions to perform manual vertebral labeling

#27 jcohenadad closed 5 months ago
6
Remove SPINEPS from the processing script

#26 jcohenadad closed 5 months ago
0
Extract MD, RD and AD

#25 jcohenadad closed 5 months ago
0
SPINEPS : RuntimeError: CUDA error: out of memory

#24 Kaonashi22 closed 5 months ago
7
Give example in README of how manual segs should be located

#23 jcohenadad closed 5 months ago
0
slicewise should be 0 for MT1 to MT0

#22 jcohenadad opened 5 months ago
0
Add call to SPINEPS in batch_processing.sh

#21 jcohenadad closed 5 months ago
34
DTI metrics files get overwritten

#20 jcohenadad closed 5 months ago
1
Wrong path to verify if files exist at the end of the processing

#19 jcohenadad closed 5 months ago
0
Sort DWI chunks from top to bottom

#18 jcohenadad closed 6 months ago
0
Add feature to use manually corrected labels on T2w data

#17 jcohenadad closed 6 months ago
13
Conversion of diffusion images to BIDS format

#16 Kaonashi22 closed 6 months ago
3
First pass and correct T2w segmentations

#15 jcohenadad opened 6 months ago
30
Create function to aggregate DWI metrics across chunks

#14 jcohenadad closed 3 months ago
3
QC display

#13 Kaonashi22 closed 7 months ago
4
ERROR for UNI images: Metric data and labels DO NOT HAVE SAME DIMENSIONS.

#12 Kaonashi22 closed 7 months ago
1
Interpretation of outputs

#11 Kaonashi22 closed 7 months ago
1
Extraction of metrics in all tracts

#10 Kaonashi22 opened 7 months ago
51
Vertebral labeling is unreliable on this dataset using `sct_label_vertebrae`

#9 jcohenadad closed 5 months ago
23
Create analysis script

#8 jcohenadad closed 7 months ago
6
Display the subject to be converted before converting it

#7 jcohenadad closed 6 months ago
1
Create analysis script

#6 jcohenadad closed 7 months ago
0
Order subjects alphabetically

#5 jcohenadad closed 6 months ago
0
Show full path of file that won't be copied

#4 jcohenadad closed 6 months ago
0
Bug during BIDS conversion

#3 Kaonashi22 closed 7 months ago
18
Use argparse for BIDS converstion script

#2 jcohenadad closed 8 months ago
0