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update #24

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DelinteNicolas and others added 30 commits February 10, 2023 18:27
@DelinteNicolas
Changed requirement
0912b30
@DelinteNicolas
Merge pull request #10 from Hyedryn/master
7e4d9e6 
Updating branch
@DelinteNicolas
Updated code to work with pypdf instead of PyPDF2
8a94aa3
@DelinteNicolas
Merge pull request #11 from Hyedryn/pypdf
febf767 
Pypdf
@DelinteNicolas
Update utils.py
212d260 
Changed formula to match expected behavior.
@DelinteNicolas
Added cutoff parameter to tracking
6e2c8ce
@DelinteNicolas
Merge pull request #14 from Hyedryn/tckgen
35ea7e6 
Added cutoff parameter to tracking
@DelinteNicolas
Added possibility of specification for output filenames in tracking f…
5653514 
…unction
@DelinteNicolas
Added possibility of specification for output filenames in tracking f…
2ade489 
…unction
@DelinteNicolas
Merge pull request #15 from Hyedryn/tract_names
ab4a1ea 
Tract names
@DelinteNicolas
Changed a single variable per fiber population instead of two
17ee9b7
@DelinteNicolas
Reduced number of lines
21d80ff
@DelinteNicolas
Reduced number of lines
d5b82f6
@DelinteNicolas
Removed unused lines, code clean up, work in progress
cc94d12
@DelinteNicolas
Output filename in MF bug fix
ca51047
@DelinteNicolas
Merge pull request #16 from Hyedryn/bugFix
0c4404c 
Output filename in MF bug fix
@DelinteNicolas
Fixed bug in tracking
81cc169
@DelinteNicolas
Fixed bug in tracking
b98d6ae
@DelinteNicolas
Merge pull request #17 from Hyedryn/tracking_fix
4bc7011 
Tracking fix
@DelinteNicolas
Added view detection and correction for sagittal view
3fd7018
@DelinteNicolas
Merge pull request #19 from Hyedryn/master
ba1521a 
Update
@DelinteNicolas
Added rgb switch in sagittal
c3c6126
@DelinteNicolas
Switched from TIME to unravel
f858da9
@DelinteNicolas
Typo fix
7dad2df
@DelinteNicolas
Typo fix
5a6d730
@DelinteNicolas
Added option to specify filename output in mf
d121a46
@DelinteNicolas
Fix typo
1a9f859
@DelinteNicolas
Bug fix
09f9a98
@DelinteNicolas
Merge pull request #21 from Hyedryn/sagittal
967d772 
Sagittal
@DelinteNicolas
Updated deprecated param name
1b96f78
Hyedryn and others added 30 commits April 10, 2024 13:35
@Hyedryn
Added save_as_trk to core for sift and tckgen
94dd093
@Hyedryn
fix issue with core count in wm mask ap
567ace4
@Hyedryn
Reduce verbosity of applytransform in registration
a8cca46
@Hyedryn
Added new check in applyTransformToAllMapsInFolder
26db8ab
@DelinteNicolas
Added non dilated mask to tckgen
d4c099b
@DelinteNicolas
Updated version
1932e49
@DelinteNicolas
Merge pull request #41 from Hyedryn/tracking_mask
0be8e87 
Tracking mask
@Hyedryn
Added success status tracking
9c605fb
@Hyedryn
Added bids support to get_patient_ref in utils.py
e2e4daf
@Hyedryn
Fixed applytopup
f50a244
@Hyedryn
Fixed typo
226d2c8
@Hyedryn
Fix io operation on closed file
671c0dc
@Hyedryn
Updated reverse encoding handling
d058b65
@Hyedryn
Fix typo
3d76201
@Hyedryn
Fix typos
80892f4
@Hyedryn
Fix typos
d986669
@Hyedryn
Edit acqparams and topup
71c5327
@Hyedryn
Fix issue
f8b9ec5
@Hyedryn
Fix issue with mask
02bd3c9
@Hyedryn
Fix topup
d210f73
@Hyedryn
Revert "Fix topup"
eacd36b 
This reverts commit d210f73.
@Hyedryn
Revert "Fix issue with mask"
fc8fa7f 
This reverts commit 02bd3c9.
@Hyedryn
Fix applytopup
f52caef
@Hyedryn
Added multithread to topup
ffac440
@Hyedryn
Fix topup timing
b76d6a3
@Hyedryn
Fixed topup process communication
821da26
@Hyedryn
Added auo acqparams and index + changed default preproc params
d1a4252
@Hyedryn
Updated patient_list
8971315
@Hyedryn
Updated patient_list
70872a2
@Hyedryn
Fix typo
5c8b689
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@DelinteNicolas @Hyedryn