scilus/scilpy issues and pull requests

#1016 - SCILPY-BOT Version 1

Pull Request - State: open - Opened by jinan02 7 months ago - 3 comments

#1015 - [ENH] Uniformize surface apply transformation

Pull Request - State: closed - Opened by arnaudbore 7 months ago - 2 comments

#1014 - [BF] Fix surfaces lib

Pull Request - State: closed - Opened by arnaudbore 7 months ago - 1 comment

#1013 - Bug while using scripts for surface files operation

Issue - State: closed - Opened by zhitao-guo 7 months ago - 1 comment

#1012 - [FIX] Missing parameter for background viz

Pull Request - State: closed - Opened by levje 7 months ago - 2 comments

#1011 - [ENH] Add script normalize bvec

Pull Request - State: closed - Opened by arnaudbore 7 months ago - 1 comment

#1010 - TODO: Harmonize `scil_labels_from_mask` and `scil_lesions_info`

Issue - State: closed - Opened by AntoineTheb 7 months ago
Labels: Hackathon-Senior

#1009 - ENH: rework `scil_tractogram_cut_streamlines` + `scil_labels_from_mask`

Pull Request - State: closed - Opened by AntoineTheb 7 months ago - 11 comments

#1008 - Some issues with dps and dpp

Issue - State: open - Opened by arnaudbore 7 months ago
Labels: Hackathon-Senior

#1007 - scil_tractogram_filter_by_length save_rejected option does nothing

Issue - State: closed - Opened by karanphil 8 months ago - 2 comments
Labels: Hackathon-Senior

#1006 - ENH: tractogram add dps

Pull Request - State: closed - Opened by AntoineTheb 8 months ago - 2 comments
Labels: enhancement

#1005 - Add create surface

Pull Request - State: closed - Opened by arnaudbore 8 months ago - 3 comments

#1004 - [ENH] Bundle fixel analysis script

Pull Request - State: closed - Opened by karanphil 8 months ago - 3 comments

#1003 - Update to work with Trimeshpy 0.0.4

Pull Request - State: closed - Opened by frheault 8 months ago - 1 comment

#1002 - [FIX] Empty remaining indices when filtering for a bundle

Pull Request - State: closed - Opened by levje 8 months ago - 2 comments

#1001 - Removing xform from convert script

Pull Request - State: closed - Opened by frheault 8 months ago - 2 comments

#1000 - [FIX] Typo in scil_dti_metrics script

Pull Request - State: closed - Opened by AlexVCaron 8 months ago - 2 comments

#999 - [FIX] 10 colors in BASE10 colors for visualization

Pull Request - State: closed - Opened by AlexVCaron 8 months ago - 1 comment

#998 - Update COMMIT AMICO - use args.processes

Pull Request - State: closed - Opened by arnaudbore 8 months ago - 2 comments

#997 - noddi multithread

Issue - State: closed - Opened by arnaudbore 8 months ago

#996 - Precompute scripts

Pull Request - State: closed - Opened by jinan02 8 months ago - 1 comment

#995 - add assert scripts output tractogram

Issue - State: closed - Opened by arnaudbore 8 months ago - 1 comment

#994 - New script to compute similarity between mask and atlas (nii)

Pull Request - State: closed - Opened by frheault 9 months ago - 3 comments

#993 - Tractogram scripts part7: segmentation scripts

Pull Request - State: closed - Opened by EmmaRenauld 9 months ago - 2 comments

#992 - Alter tractogram (trim, cut, replace, subsample, transform)

Pull Request - State: closed - Opened by frheault 9 months ago - 2 comments

#991 - Tractogram scripts part6

Pull Request - State: closed - Opened by EmmaRenauld 9 months ago - 2 comments

#990 - [BF] Fix mask type - dwi apply bias field

Pull Request - State: closed - Opened by arnaudbore 9 months ago - 1 comment

#989 - [FIX] fixed typo in surface convert script

Pull Request - State: closed - Opened by grahamlittlephd 9 months ago - 1 comment

#988 - Fix wrong import in legacy file

Pull Request - State: closed - Opened by EmmaRenauld 9 months ago - 1 comment

#987 - Add param sub_sphere to tracking_local_dev

Pull Request - State: closed - Opened by arnaudbore 9 months ago - 1 comment

#986 - Fix verifications in volume_resample

Pull Request - State: closed - Opened by EmmaRenauld 10 months ago - 2 comments

#985 - Generate HDF5 from TRKs

Pull Request - State: closed - Opened by frheault 10 months ago - 3 comments

#984 - Delete script fix_trk

Pull Request - State: closed - Opened by EmmaRenauld 10 months ago - 2 comments

#983 - Tractogram scripts part 5

Pull Request - State: closed - Opened by EmmaRenauld 10 months ago - 5 comments

#982 - Easy tests reconst

Pull Request - State: closed - Opened by EmmaRenauld 10 months ago - 1 comment

#981 - BF Remove python 3.11 from install

Pull Request - State: closed - Opened by arnaudbore 10 months ago

#980 - Fix install with version

Pull Request - State: closed - Opened by arnaudbore 10 months ago

#979 - BF github action

Pull Request - State: closed - Opened by arnaudbore 10 months ago

#978 - Add action to publish to testpypi

Pull Request - State: closed - Opened by arnaudbore 10 months ago - 1 comment

#977 - scilpy 2.0

Pull Request - State: closed - Opened by arnaudbore 10 months ago - 1 comment

#976 - NF - add PTT options to the local tracking script

Pull Request - State: closed - Opened by gabknight 10 months ago - 2 comments

#975 - Keyword-only arguments

Issue - State: open - Opened by CHrlS98 10 months ago - 1 comment

#974 - FIX: scorer crash if only NC and --unique

Pull Request - State: closed - Opened by AntoineTheb 10 months ago - 1 comment

#973 - [FAKE PR] See coverage from scripts tests only

Pull Request - State: open - Opened by EmmaRenauld 10 months ago - 1 comment

#972 - [WIP] Denoise nl_means script

Pull Request - State: open - Opened by EmmaRenauld 10 months ago - 1 comment
Labels: WIP

#971 - [WIP] Fibertube Tracking

Pull Request - State: open - Opened by VincentBeaud 10 months ago - 5 comments

#970 - [VIZ] Add support for peak coloring

Issue - State: open - Opened by AlexVCaron 10 months ago

#969 - Forgotten renaming

Pull Request - State: closed - Opened by EmmaRenauld 10 months ago - 1 comment

#968 - [FAKE PR] Coverage on unit tests only

Pull Request - State: open - Opened by EmmaRenauld 10 months ago - 2 comments

#967 - Unit test dpp dps management

Pull Request - State: closed - Opened by EmmaRenauld 10 months ago - 1 comment

#966 - [WIP] Remove scripts from coverage for testing

Pull Request - State: closed - Opened by arnaudbore 10 months ago - 3 comments

#965 - Small fixes and util addition

Pull Request - State: closed - Opened by VincentBeaud 10 months ago - 1 comment

#964 - Updating the BundleSeg reference

Pull Request - State: closed - Opened by elyz081 10 months ago - 1 comment

#963 - Fix issue 962

Pull Request - State: closed - Opened by EmmaRenauld 10 months ago - 1 comment

#962 - scil_tractogram_uniformize_endpoints.py : Can not use target_roi with an atlas and a label.

Issue - State: closed - Opened by matthieudumont 10 months ago - 2 comments

#961 - Tractogram scripts parts4

Pull Request - State: closed - Opened by EmmaRenauld 10 months ago - 4 comments

#960 - Apply transform to hdf5 error when DPP are present

Issue - State: closed - Opened by frheault 11 months ago - 4 comments
Labels: Hackathon - Junior

#959 - switch to monkeypatch.chdir

Pull Request - State: closed - Opened by AlexVCaron 11 months ago - 2 comments

#958 - Tractogram scripts parts3

Pull Request - State: closed - Opened by EmmaRenauld 11 months ago - 2 comments

#957 - Load large fODF volumes using memmaps

Issue - State: open - Opened by AlexVCaron 11 months ago

#956 - Uniformize help messages formatting

Issue - State: closed - Opened by AlexVCaron 11 months ago

#955 - Fix remove invalid overlap pts

Pull Request - State: closed - Opened by frheault 11 months ago - 2 comments

#954 - Tractogram scripts parts2

Pull Request - State: closed - Opened by EmmaRenauld 11 months ago - 2 comments

#953 - Close issue 698

Pull Request - State: closed - Opened by EmmaRenauld 11 months ago

#952 - Lost options for PTT tracking

Issue - State: closed - Opened by EmmaRenauld 11 months ago

#951 - [WIP] Add scripts for MRDS metrics along bundle

Pull Request - State: open - Opened by ErickHernandezGutierrez 11 months ago - 1 comment

#950 - Move utils.streamlines methods

Pull Request - State: closed - Opened by EmmaRenauld 11 months ago - 2 comments

#949 - Add description and epilog to Synthesis b0

Pull Request - State: closed - Opened by frheault 11 months ago - 1 comment

#948 - Tractogram scripts part1

Pull Request - State: closed - Opened by EmmaRenauld 11 months ago - 2 comments

#947 - Volumes scripts

Pull Request - State: closed - Opened by EmmaRenauld 11 months ago - 3 comments

#946 - Last renaming

Pull Request - State: closed - Opened by EmmaRenauld 11 months ago - 3 comments

#945 - [ENH] Add possibility to use a label mask with two values to cut streamlines

Pull Request - State: closed - Opened by arnaudbore 11 months ago - 3 comments
Labels: WIP

#944 - [ENH] Dipy 1.9

Pull Request - State: closed - Opened by arnaudbore 11 months ago - 2 comments

#943 - update help local and pft tracking

Issue - State: closed - Opened by arnaudbore 11 months ago - 1 comment

#942 - Volumes test

Pull Request - State: closed - Opened by EmmaRenauld 11 months ago - 3 comments

#941 - Add test single shell NODDI

Issue - State: closed - Opened by arnaudbore 11 months ago - 1 comment
Labels: Hackathon-Senior

#940 - Image correlation correct?

Issue - State: closed - Opened by EmmaRenauld 11 months ago - 2 comments

#939 - NLmeans unclear!

Issue - State: open - Opened by EmmaRenauld 11 months ago - 1 comment

#938 - Update dvc requirements

Pull Request - State: closed - Opened by AlexVCaron 11 months ago - 1 comment

#937 - Verify mask fit with reference in get_data_as_mask

Pull Request - State: closed - Opened by EmmaRenauld 11 months ago - 3 comments

#936 - Reconst scripts part4

Pull Request - State: closed - Opened by EmmaRenauld 11 months ago - 2 comments

#935 - BUG : dvc cache partially used when packages are pulled

Issue - State: closed - Opened by AlexVCaron 11 months ago
Labels: bug

#934 - [BF] Issue 932

Pull Request - State: closed - Opened by arnaudbore 11 months ago - 2 comments

#933 - Split load_and_verify_mti function

Pull Request - State: closed - Opened by karanphil 11 months ago - 1 comment

#932 - BUG: `scil_tractogram_commit.py` crashes without a mask

Issue - State: closed - Opened by AntoineTheb 11 months ago - 2 comments
Labels: bug

#931 - codevov does not cov multithread processes

Issue - State: closed - Opened by arnaudbore 11 months ago - 3 comments

#930 - Adding msmt support and test to scil_frf_mean

Pull Request - State: closed - Opened by karanphil 11 months ago - 2 comments

#929 - Unit tests for the fiber coherence

Pull Request - State: closed - Opened by EmmaRenauld 11 months ago - 2 comments

#928 - Cleaning scil_gradients_validate_correct handling of peaks

Pull Request - State: closed - Opened by karanphil 11 months ago - 2 comments

#927 - [WIP][ENH] Fix coverage for multiprocessed functions

Pull Request - State: closed - Opened by arnaudbore 12 months ago - 2 comments
Labels: WIP

#926 - Cleaning reconst scripts, part 3.

Pull Request - State: closed - Opened by EmmaRenauld 12 months ago - 1 comment

#925 - Migrate code from aodf-toolkit

Pull Request - State: closed - Opened by CHrlS98 12 months ago - 3 comments

#924 - Cleaning reconst scripts part2

Pull Request - State: closed - Opened by EmmaRenauld 12 months ago - 3 comments

#923 - Fix Documentation - readthedoc v2

Pull Request - State: closed - Opened by arnaudbore 12 months ago - 1 comment

#922 - plot residual in dti_metrics

Issue - State: closed - Opened by arnaudbore 12 months ago
Labels: Hackathon - Junior

#921 - Add SH basis legacy support

Pull Request - State: closed - Opened by karanphil 12 months ago - 2 comments

#920 - FIX: screenshot functions no longer working

Pull Request - State: closed - Opened by AntoineTheb 12 months ago
Labels: bug

#919 - Adding tests to scil_dwi_reorder_philips.py

Pull Request - State: closed - Opened by karanphil 12 months ago - 1 comment

#918 - Unit tests dwi

Pull Request - State: closed - Opened by EmmaRenauld 12 months ago - 1 comment

#917 - scilpy v2.0

Issue - State: closed - Opened by AlexVCaron 12 months ago

GitHub / scilus/scilpy issues and pull requests