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DelinteNicolas wants to merge 123 commits intoDelinteNicolas-descriptionsFixHyedryn/elikopy:DelinteNicolas-descriptionsFixfrom masterHyedryn/elikopy:masterCopy head branch name to clipboard

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Commits

Commits on Feb 10, 2023

• Changed requirement

  DelinteNicolas

  committed
  0912b30

• Merge pull request #10 from Hyedryn/master

  Show description for 7e4d9e6
  DelinteNicolas

  authored
  7e4d9e6

• Updated code to work with pypdf instead of PyPDF2

  DelinteNicolas

  committed
  8a94aa3

Commits on Feb 11, 2023

• Merge pull request #11 from Hyedryn/pypdf

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  DelinteNicolas

  authored
  febf767

Commits on Feb 17, 2023

• Update utils.py

  Show description for 212d260
  DelinteNicolas

  authored
  212d260

Commits on Mar 1, 2023

• Added cutoff parameter to tracking

  DelinteNicolas

  committed
  6e2c8ce

• Merge pull request #14 from Hyedryn/tckgen

  Show description for 35ea7e6
  DelinteNicolas

  authored
  35ea7e6

Commits on Apr 19, 2023

• Added possibility of specification for output filenames in tracking function

  DelinteNicolas

  committed
  5653514

• Added possibility of specification for output filenames in tracking function

  DelinteNicolas

  committed
  2ade489

• Merge pull request #15 from Hyedryn/tract_names

  Show description for ab4a1ea
  DelinteNicolas

  authored
  ab4a1ea

Commits on Apr 20, 2023

• Changed a single variable per fiber population instead of two

  DelinteNicolas

  committed
  17ee9b7

• Reduced number of lines

  DelinteNicolas

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  21d80ff

• Reduced number of lines

  DelinteNicolas

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  d5b82f6

• Removed unused lines, code clean up, work in progress

  DelinteNicolas

  committed
  cc94d12

Commits on Apr 21, 2023

• Output filename in MF bug fix

  DelinteNicolas

  committed
  ca51047

• Merge pull request #16 from Hyedryn/bugFix

  Show description for 0c4404c
  DelinteNicolas

  authored
  0c4404c

• Fixed bug in tracking

  DelinteNicolas

  committed
  81cc169

• Fixed bug in tracking

  DelinteNicolas

  committed
  b98d6ae

• Merge pull request #17 from Hyedryn/tracking_fix

  Show description for 4bc7011
  DelinteNicolas

  authored
  4bc7011

Commits on Apr 24, 2023

• Added view detection and correction for sagittal view

  DelinteNicolas

  committed
  3fd7018

• Merge pull request #19 from Hyedryn/master

  Show description for ba1521a
  DelinteNicolas

  authored
  ba1521a

• Added rgb switch in sagittal

  DelinteNicolas

  committed
  c3c6126

• Switched from TIME to unravel

  DelinteNicolas

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  f858da9

• Typo fix

  DelinteNicolas

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  7dad2df

• Typo fix

  DelinteNicolas

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  5a6d730

• Added option to specify filename output in mf

  DelinteNicolas

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  d121a46

• Fix typo

  DelinteNicolas

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  1a9f859

• Bug fix

  DelinteNicolas

  committed
  09f9a98

• Merge pull request #21 from Hyedryn/sagittal

  Show description for 967d772
  DelinteNicolas

  authored
  967d772

Commits on May 5, 2023

• Updated deprecated param name

  DelinteNicolas

  committed
  1b96f78

• Merge pull request #22 from Hyedryn/maintenance

  Show description for c241efe
  DelinteNicolas

  authored
  c241efe

Commits on May 9, 2023

• Removed parameter

  DelinteNicolas

  committed
  6804548

• Merge pull request #23 from Hyedryn/bugfixing

  Show description for dd43de8
  DelinteNicolas

  authored
  dd43de8

Commits on Jun 25, 2023

• Added else condition to mf color_order

  DelinteNicolas

  committed
  29cbf54

• Merge pull request #26 from Hyedryn/color_order_fix_2

  Show description for 92a6084
  DelinteNicolas

  authored
  92a6084

Commits on Jul 18, 2023

• Added sift

  DelinteNicolas

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  769a3c2

• bug fix

  DelinteNicolas

  committed
  376526c

• Merge pull request #28 from Hyedryn/sift

  Show description for 1c28def
  DelinteNicolas

  authored
  1c28def

Commits on Sep 8, 2023

• Fix typo in patient list wrapper

  Hyedryn

  committed
  85c971b

Commits on Oct 25, 2023

• Added paramter for axial error and throws error if not activated

  DelinteNicolas

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  22b6489

• Updated UNRAVEL functions to new input type

  DelinteNicolas

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  40eabf2

Commits on Dec 1, 2023

• Merge pull request #30 from Hyedryn/oblique

  Show description for 28d82f3
  DelinteNicolas

  authored
  28d82f3

Commits on Dec 5, 2023

• Added eddy_additional_arg to preproc

  Hyedryn

  committed
  b5aff6e

Commits on Dec 14, 2023

• Removed buffer for print fct

  Hyedryn

  committed
  531a0f4

Commits on Dec 30, 2023

• Fix issue with unravel and mf

  Hyedryn

  committed
  eb0330b

• Migrate elikopy to pyproject with poetry

  Hyedryn

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  55262e0

Commits on Dec 31, 2023

• change scipy min requirement

  Hyedryn

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  cfdacf7

• Updated readthedocs config

  Hyedryn

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  321fef5

• Update to readthedocs conf

  Hyedryn

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  6c03012

• Update to read the docs

  Hyedryn

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  2867079

• Update to read the docs

  Hyedryn

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  dcec023

• Update to read the docs

  Hyedryn

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  085fb5b

• Update to read the docs

  Hyedryn

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  5be9d55

• Change python version requirement

  Hyedryn

  committed
  0eb482c

Commits on Jan 2, 2024

• Fix version requirements

  Hyedryn

  committed
  b25db4b

Commits on Jan 5, 2024

• Remove some residual files

  Hyedryn

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  6bacb0a

Commits on Jan 15, 2024

• Updated Readme

  Hyedryn

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  5527235

• Create python-publish.yml

  Hyedryn

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  3f15ec6

• Added DOI badge

  Hyedryn

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  6686373

Commits on Feb 12, 2024

• Fixing peaks orientation with different views

  DelinteNicolas

  committed
  26d4a16

• Fixing peaks orientation with different views

  DelinteNicolas

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  f14f879

• Fixing peaks orientation with different views

  DelinteNicolas

  committed
  ed25e4a

• Removed warning raised

  DelinteNicolas

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  390ccf5

• Simplified creation of peaks and amplitude with msmst-csd

  DelinteNicolas

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  7f030cb

• Bug fix in warning

  DelinteNicolas

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  52df1ef

• Fixing typo

  DelinteNicolas

  committed
  fe374d9

• v0.4

  DelinteNicolas

  committed
  9367a03

• Merge pull request #34 from Hyedryn/views

  Show description for eca7b6e
  DelinteNicolas

  authored
  eca7b6e

Commits on Feb 15, 2024

• Fixed peaks and amplitude with msmt-csd

  Hyedryn

  committed
  4b2821a

• Update pyproject.toml

  Show description for cb0188f
  DelinteNicolas

  authored
  cb0188f

• Merge pull request #36 from Hyedryn/MSMT-CSD_bugFix

  Show description for 09ca821
  DelinteNicolas

  authored
  09ca821

Commits on Feb 16, 2024

• Fix NameError in core.py fingerprinting function

  Hyedryn

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  ff47cef

• Merge branch 'master' of https://github.com/Hyedryn/elikopy

  Hyedryn

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  4229649

Commits on Feb 28, 2024

• restricetd DTI to b=2000 max

  DelinteNicolas

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  ef37e89

• Typo fix

  DelinteNicolas

  committed
  9da325a

• Removed unused parentheses

  DelinteNicolas

  committed
  f817a4a

• Fixing function call

  DelinteNicolas

  committed
  bc33beb

• Merge pull request #37 from Hyedryn/restricted_DTI

  Show description for 240647f
  DelinteNicolas

  authored
  240647f

Commits on Feb 29, 2024

• Fixed launching of sift without slurm in core.py

  Hyedryn

  committed
  3df63a4

Commits on Mar 28, 2024

• Added longitudinal study support for commonspace registration

  Hyedryn

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  4d1fafb

• Added utils for longitudinal

  Hyedryn

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  e8bd81a

• Fix registration typo

  Hyedryn

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  357eb8b

• Fix typo

  Hyedryn

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  104e398

• Fig registration from T1Ref to T1CommonSpace

  Hyedryn

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  89e5feb

• Added new T1 brain extraction

  Hyedryn

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  1ffaa6f

• Fix issues in T1 brain mask

  Hyedryn

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  60ab134

• Removed legacy elikopy.mouse

  Hyedryn

  committed
  c12f781

Commits on Mar 29, 2024

• Update pyproject.toml

  Show description for 5acfdee
  DelinteNicolas

  authored
  5acfdee

• Merge pull request #38 from Hyedryn/DelinteNicolas-patch-1

  Show description for 5035552
  DelinteNicolas

  authored
  5035552

Commits on Apr 2, 2024

• Edit mask in preproc

  Hyedryn

  committed
  fe3ca82

Commits on Apr 7, 2024

• New masking for T1 and DWI, new registration technique for DWI->T1 transform (#40)

  Show description for c6b561a
  Hyedryn

  authored
  c6b561a

Commits on Apr 8, 2024

• Fixed issues in B0FSL registration

  Hyedryn

  committed
  ee63ec2

Commits on Apr 9, 2024

• Removed trk from tracto

  Hyedryn

  committed
  8ec99c0

Commits on Apr 10, 2024

• Added save_as_trk to core for sift and tckgen

  Hyedryn

  committed
  94dd093

• fix issue with core count in wm mask ap

  Hyedryn

  committed
  567ace4

Commits on Apr 11, 2024

• Reduce verbosity of applytransform in registration

  Hyedryn

  committed
  a8cca46

• Added new check in applyTransformToAllMapsInFolder

  Hyedryn

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  26db8ab

• Added non dilated mask to tckgen

  DelinteNicolas

  committed
  d4c099b

• Updated version

  DelinteNicolas

  committed
  1932e49

• Merge pull request #41 from Hyedryn/tracking_mask

  Show description for 0be8e87
  DelinteNicolas

  authored
  0be8e87

Commits on Nov 24, 2024

• Added success status tracking

  Hyedryn

  committed
  9c605fb

Commits on Nov 26, 2024

• Added bids support to get_patient_ref in utils.py

  Hyedryn

  committed
  e2e4daf

Commits on Dec 10, 2024

• Fixed applytopup

  Hyedryn

  committed
  f50a244

• Fixed typo

  Hyedryn

  committed
  226d2c8

• Fix io operation on closed file

  Hyedryn

  committed
  671c0dc

Commits on Dec 11, 2024

• Updated reverse encoding handling

  Hyedryn

  committed
  d058b65

• Fix typo

  Hyedryn

  committed
  3d76201

• Fix typos

  Hyedryn

  committed
  80892f4

• Fix typos

  Hyedryn

  committed
  d986669

• Edit acqparams and topup

  Hyedryn

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  71c5327

• Fix issue

  Hyedryn

  committed
  f8b9ec5

• Fix issue with mask

  Hyedryn

  committed
  02bd3c9

• Fix topup

  Hyedryn

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  d210f73

• Revert "Fix topup"

  Show description for eacd36b
  Hyedryn

  committed
  eacd36b

• Revert "Fix issue with mask"

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  Hyedryn

  committed
  fc8fa7f

• Fix applytopup

  Hyedryn

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  f52caef

• Added multithread to topup

  Hyedryn

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  ffac440

• Fix topup timing

  Hyedryn

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  b76d6a3

• Fixed topup process communication

  Hyedryn

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  821da26

Commits on Dec 12, 2024

• Added auo acqparams and index + changed default preproc params

  Hyedryn

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  d1a4252

• Updated patient_list

  Hyedryn

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  8971315

• Updated patient_list

  Hyedryn

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  70872a2

• Fix typo

  Hyedryn

  committed
  5c8b689