Ecosyste.ms: Issues

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GitHub / scilus/scilpy issues and pull requests

#1028 - [WIP] Fix tests

Pull Request - State: open - Opened by arnaudbore 23 days ago - 1 comment

#1027 - Tractograms: more unit tests

Pull Request - State: open - Opened by EmmaRenauld 28 days ago - 1 comment

#1026 - Nawm generation based on distance map

Pull Request - State: open - Opened by frheault 29 days ago - 1 comment

#1025 - Error while building scilpy from source

Issue - State: open - Opened by zhitao-guo about 1 month ago

#1024 - Update test data key to 'tractograms.zip' instead of 'atlas.zip'

Pull Request - State: open - Opened by elyz081 about 1 month ago - 3 comments

#1023 - Distance map

Pull Request - State: closed - Opened by frheault about 1 month ago - 3 comments

#1022 - [ENH] Add mrds scripts part 2

Pull Request - State: open - Opened by arnaudbore about 2 months ago - 1 comment

#1021 - [ENH] Add mrds scripts part 1

Pull Request - State: open - Opened by arnaudbore about 2 months ago - 2 comments

#1020 - Modify lesions_info to support labels instead of mask

Pull Request - State: closed - Opened by frheault 2 months ago - 1 comment

#1019 - ENH: Pad or crop volume using `scil_volume_reshape.py`

Pull Request - State: open - Opened by AntoineTheb 2 months ago - 4 comments
Labels: enhancement

#1018 - Removing unused argument in scil_bundle_fixel_analysis.py

Pull Request - State: closed - Opened by karanphil 2 months ago - 1 comment

#1017 - WIP: fODF interpolation (help needed)

Pull Request - State: open - Opened by AntoineTheb 2 months ago - 5 comments
Labels: bug, enhancement

#1016 - SCILPY-BOT Version 1

Pull Request - State: open - Opened by jinan02 2 months ago - 3 comments

#1015 - [ENH] Uniformize surface apply transformation

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

#1014 - [BF] Fix surfaces lib

Pull Request - State: closed - Opened by arnaudbore 2 months ago - 1 comment

#1013 - Bug while using scripts for surface files operation

Issue - State: closed - Opened by zhitao-guo 2 months ago - 1 comment

#1012 - [FIX] Missing parameter for background viz

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

#1011 - [ENH] Add script normalize bvec

Pull Request - State: closed - Opened by arnaudbore 2 months ago - 1 comment

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

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

#1008 - Some issues with dps and dpp

Issue - State: open - Opened by arnaudbore 3 months ago

#1007 - scil_tractogram_filter_by_length save_rejected option does nothing

Issue - State: open - Opened by karanphil 3 months ago - 1 comment

#1006 - ENH: tractogram add dps

Pull Request - State: closed - Opened by AntoineTheb 3 months ago - 2 comments
Labels: enhancement

#1005 - Add create surface

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

#1004 - [ENH] Bundle fixel analysis script

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

#1003 - Update to work with Trimeshpy 0.0.4

Pull Request - State: closed - Opened by frheault 3 months ago - 1 comment

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

Pull Request - State: closed - Opened by levje 4 months ago - 2 comments

#1001 - Removing xform from convert script

Pull Request - State: closed - Opened by frheault 4 months ago - 2 comments

#1000 - [FIX] Typo in scil_dti_metrics script

Pull Request - State: closed - Opened by AlexVCaron 4 months ago - 2 comments

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

Pull Request - State: closed - Opened by AlexVCaron 4 months ago - 1 comment

#998 - Update COMMIT AMICO - use args.processes

Pull Request - State: closed - Opened by arnaudbore 4 months ago - 2 comments

#997 - noddi multithread

Issue - State: closed - Opened by arnaudbore 4 months ago

#996 - Precompute scripts

Pull Request - State: closed - Opened by jinan02 4 months ago - 1 comment

#995 - add assert scripts output tractogram

Issue - State: open - Opened by arnaudbore 4 months ago

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

Pull Request - State: closed - Opened by frheault 4 months ago - 3 comments

#993 - Tractogram scripts part7: segmentation scripts

Pull Request - State: closed - Opened by EmmaRenauld 4 months ago - 2 comments

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

Pull Request - State: closed - Opened by frheault 5 months ago - 2 comments

#991 - Tractogram scripts part6

Pull Request - State: closed - Opened by EmmaRenauld 5 months ago - 2 comments

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

Pull Request - State: closed - Opened by arnaudbore 5 months ago - 1 comment

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

Pull Request - State: closed - Opened by grahamlittlephd 5 months ago - 1 comment

#988 - Fix wrong import in legacy file

Pull Request - State: closed - Opened by EmmaRenauld 5 months ago - 1 comment

#987 - Add param sub_sphere to tracking_local_dev

Pull Request - State: closed - Opened by arnaudbore 5 months ago - 1 comment

#986 - Fix verifications in volume_resample

Pull Request - State: closed - Opened by EmmaRenauld 5 months ago - 2 comments

#985 - Generate HDF5 from TRKs

Pull Request - State: closed - Opened by frheault 5 months ago - 3 comments

#984 - [WIP] Fix script fix_trk

Pull Request - State: open - Opened by EmmaRenauld 5 months ago - 2 comments
Labels: WIP

#983 - Tractogram scripts part 5

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

#982 - Easy tests reconst

Pull Request - State: closed - Opened by EmmaRenauld 5 months ago - 1 comment

#981 - BF Remove python 3.11 from install

Pull Request - State: closed - Opened by arnaudbore 6 months ago

#980 - Fix install with version

Pull Request - State: closed - Opened by arnaudbore 6 months ago

#979 - BF github action

Pull Request - State: closed - Opened by arnaudbore 6 months ago

#978 - Add action to publish to testpypi

Pull Request - State: closed - Opened by arnaudbore 6 months ago - 1 comment

#977 - scilpy 2.0

Pull Request - State: closed - Opened by arnaudbore 6 months ago - 1 comment

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

Pull Request - State: closed - Opened by gabknight 6 months ago - 2 comments

#975 - Keyword-only arguments

Issue - State: open - Opened by CHrlS98 6 months ago

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

Pull Request - State: closed - Opened by AntoineTheb 6 months ago - 1 comment

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

Pull Request - State: open - Opened by EmmaRenauld 6 months ago - 1 comment

#972 - [WIP] Denoise nl_means script

Pull Request - State: open - Opened by EmmaRenauld 6 months ago - 1 comment
Labels: WIP

#971 - [WIP] Fibertube Tracking

Pull Request - State: open - Opened by VincentBeaud 6 months ago - 5 comments

#970 - [VIZ] Add support for peak coloring

Issue - State: open - Opened by AlexVCaron 6 months ago

#969 - Forgotten renaming

Pull Request - State: closed - Opened by EmmaRenauld 6 months ago - 1 comment

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

Pull Request - State: open - Opened by EmmaRenauld 6 months ago - 2 comments

#967 - Unit test dpp dps management

Pull Request - State: closed - Opened by EmmaRenauld 6 months ago - 1 comment

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

Pull Request - State: closed - Opened by arnaudbore 6 months ago - 3 comments

#965 - Small fixes and util addition

Pull Request - State: closed - Opened by VincentBeaud 6 months ago - 1 comment

#964 - Updating the BundleSeg reference

Pull Request - State: closed - Opened by elyz081 6 months ago - 1 comment

#963 - Fix issue 962

Pull Request - State: closed - Opened by EmmaRenauld 6 months ago - 1 comment

#961 - Tractogram scripts parts4

Pull Request - State: closed - Opened by EmmaRenauld 6 months ago - 4 comments

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

Issue - State: open - Opened by frheault 6 months ago - 1 comment

#959 - switch to monkeypatch.chdir

Pull Request - State: closed - Opened by AlexVCaron 6 months ago - 2 comments

#958 - Tractogram scripts parts3

Pull Request - State: closed - Opened by EmmaRenauld 6 months ago - 2 comments

#957 - Load large fODF volumes using memmaps

Issue - State: open - Opened by AlexVCaron 6 months ago

#956 - Uniformize help messages formatting

Issue - State: open - Opened by AlexVCaron 6 months ago

#955 - Fix remove invalid overlap pts

Pull Request - State: closed - Opened by frheault 6 months ago - 2 comments

#954 - Tractogram scripts parts2

Pull Request - State: closed - Opened by EmmaRenauld 6 months ago - 2 comments

#953 - Close issue 698

Pull Request - State: closed - Opened by EmmaRenauld 6 months ago

#952 - Lost options for PTT tracking

Issue - State: closed - Opened by EmmaRenauld 6 months ago

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

Pull Request - State: open - Opened by ErickHernandezGutierrez 6 months ago - 1 comment

#950 - Move utils.streamlines methods

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

#949 - Add description and epilog to Synthesis b0

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

#948 - Tractogram scripts part1

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

#947 - Volumes scripts

Pull Request - State: closed - Opened by EmmaRenauld 7 months ago - 3 comments

#946 - Last renaming

Pull Request - State: closed - Opened by EmmaRenauld 7 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 7 months ago - 3 comments
Labels: WIP

#944 - [ENH] Dipy 1.9

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

#943 - update help local and pft tracking

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

#942 - Volumes test

Pull Request - State: closed - Opened by EmmaRenauld 7 months ago - 3 comments

#941 - Add test single shell NODDI

Issue - State: open - Opened by arnaudbore 7 months ago

#940 - Image correlation correct?

Issue - State: closed - Opened by EmmaRenauld 7 months ago - 2 comments

#939 - NLmeans unclear!

Issue - State: open - Opened by EmmaRenauld 7 months ago - 1 comment

#938 - Update dvc requirements

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

#937 - Verify mask fit with reference in get_data_as_mask

Pull Request - State: closed - Opened by EmmaRenauld 7 months ago - 3 comments

#936 - Reconst scripts part4

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

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

Issue - State: closed - Opened by AlexVCaron 7 months ago
Labels: bug

#934 - [BF] Issue 932

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

#933 - Split load_and_verify_mti function

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

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

Issue - State: closed - Opened by AntoineTheb 7 months ago - 2 comments
Labels: bug

#931 - codevov does not cov multithread processes

Issue - State: open - Opened by arnaudbore 7 months ago - 2 comments

#930 - Adding msmt support and test to scil_frf_mean

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

#929 - Unit tests for the fiber coherence

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