Ecosyste.ms: Issues

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GitHub / scilus/scilpy issues and pull requests

#915 - ToDo: scil_dwi_detect_volume_outliers improvement

Issue - State: open - Opened by EmmaRenauld 12 months ago - 1 comment
Labels: Hackathon - Junior

#914 - Check typo automatically

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

#913 - New script: Compute endpoints density map

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

#912 - Fixing search keywords

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

#911 - Refactor project_streamlines_to_map

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

#910 - Speedup testing

Issue - State: open - Opened by arnaudbore 12 months ago
Labels: Hackathon-Senior

#909 - Ability to resume workflow when codecov push fails

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

#908 - Cleaning reconst scripts part1

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

#907 - Fix coverage report paths

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

#906 - DO NOT MERGE, TEST FOR MASTER'S FIX

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

#905 - Fix and uniformize verbose

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

#904 - Finish cleaning the main of dwi_ scripts, to allow eventual unit tests

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

#903 - Add gradient_utils unit tests

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

#902 - Fix coverage sources

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

#901 - Add GPU support for PFT tracking

Issue - State: open - Opened by CHrlS98 12 months ago - 4 comments

#900 - [WIP] Fix and uniformize verbose

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

#899 - disable test run on forks

Pull Request - State: closed - Opened by AlexVCaron 12 months ago

#898 - Fix weighted mean std when infinite values

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

#897 - run workflow on PR head

Pull Request - State: closed - Opened by AlexVCaron 12 months ago

#896 - Adding msmt support to set_frf_diffusivities

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

#895 - pass fetcher to DVC

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

#894 - FIX: scil_visualize_connectivity text rotation

Pull Request - State: closed - Opened by AntoineTheb 12 months ago - 1 comment
Labels: bug

#893 - Cancel previous concurrent build

Pull Request - State: closed - Opened by AlexVCaron about 1 year ago

#892 - [WIP] Kill Jenkins

Pull Request - State: closed - Opened by AlexVCaron about 1 year ago - 1 comment

#891 - SFT's hidden `_data` should never be used.

Issue - State: open - Opened by EmmaRenauld about 1 year ago - 2 comments
Labels: Hackathon-Senior

#890 - Robustify the coloring

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 1 comment

#889 - Fix documentation

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 3 comments

#888 - Fix bad commit in codecov

Pull Request - State: closed - Opened by AlexVCaron about 1 year ago - 6 comments

#887 - Add Otsu threshold to scil_volume_math.py

Pull Request - State: closed - Opened by CHrlS98 about 1 year ago - 3 comments

#886 - add step to publish coverage to codecov.io

Pull Request - State: closed - Opened by AlexVCaron about 1 year ago - 3 comments

#885 - Unit tests: gradients.bvec_bval_tools

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 4 comments

#884 - Division by 0

Issue - State: closed - Opened by EmmaRenauld about 1 year ago - 1 comment
Labels: Hackathon-Senior

#883 - Bump pillow from 10.0.1 to 10.2.0 in /docs

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#882 - Bump pillow from 10.0.1 to 10.2.0

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#881 - Fix the script for unequal bval

Pull Request - State: closed - Opened by frheault about 1 year ago - 1 comment

#880 - Bind DVC data registry

Pull Request - State: closed - Opened by AlexVCaron about 1 year ago - 6 comments

#879 - Default logging level

Issue - State: closed - Opened by EmmaRenauld about 1 year ago - 5 comments

#878 - rename some scripts

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 3 comments

#876 - [BF] tractoflow filter by roi

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 2 comments

#875 - [ENH] Add pull request template

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 2 comments

#874 - TODO Jan 2024

Issue - State: closed - Opened by arnaudbore about 1 year ago - 1 comment

#873 - Fix basename compute dwi snr

Pull Request - State: closed - Opened by Manonedde about 1 year ago - 2 comments

#872 - Add perpendicular diffusivity in NODDI priors

Pull Request - State: closed - Opened by gagnonanthony about 1 year ago - 3 comments

#871 - Fix_basename_dwi_compute_snr

Pull Request - State: closed - Opened by Manonedde about 1 year ago - 4 comments

#870 - MT/ihMT scripts: cleanup and adding B1+ correction

Pull Request - State: closed - Opened by karanphil about 1 year ago - 14 comments

#869 - [ENH] Add coverage

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 3 comments

#868 - [WIP] Add_version_scilpy

Pull Request - State: closed - Opened by ThoumyreStanislas about 1 year ago - 4 comments

#867 - Clarify b0 threshold

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 18 comments

#866 - ToDo, manage differently b0_threshold and tolerance.

Issue - State: closed - Opened by EmmaRenauld about 1 year ago

#865 - Warning for descoteaux basis

Issue - State: closed - Opened by EmmaRenauld about 1 year ago - 2 comments

#864 - Update doc surface

Pull Request - State: closed - Opened by grahamlittlephd about 1 year ago - 4 comments

#863 - Rename "lobe-specific metrics" to "Bingham metrics"

Pull Request - State: closed - Opened by CHrlS98 about 1 year ago - 2 comments

#862 - fix Max issues

Pull Request - State: closed - Opened by Manonedde about 1 year ago - 1 comment

#861 - DOC - tracking

Pull Request - State: closed - Opened by gabknight about 1 year ago - 1 comment

#860 - Update help prompts to fit new name + add formerly: line for old script name.

Pull Request - State: closed - Opened by gagnonanthony about 1 year ago - 8 comments

#859 - scil_dwi_extract_b0 -f

Issue - State: closed - Opened by mdesco about 1 year ago

#858 - scil_dwi_compute_snr

Issue - State: closed - Opened by mdesco about 1 year ago

#857 - Improved docstring and renaming

Pull Request - State: closed - Opened by frheault about 1 year ago - 7 comments
Labels: restructuration

#856 - RF - Scripts Renaming

Pull Request - State: closed - Opened by gabknight about 1 year ago - 3 comments

#855 - Merge asymmetric filtering scripts

Pull Request - State: closed - Opened by CHrlS98 about 1 year ago - 6 comments

#854 - ENH: merge gradients convert

Pull Request - State: closed - Opened by AntoineTheb about 1 year ago - 6 comments
Labels: restructuration

#853 - Update to dipy 1.8

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 10 comments

#852 - Rename small utils

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 4 comments
Labels: restructuration

#851 - Add throttling to jenkins pipeline

Pull Request - State: closed - Opened by AlexVCaron about 1 year ago - 1 comment
Labels: restructuration

#850 - [WIP] Add_verbose_arg

Pull Request - State: closed - Opened by ThoumyreStanislas about 1 year ago - 4 comments
Labels: restructuration

#849 - fix_surface_renaming

Pull Request - State: closed - Opened by frheault about 1 year ago - 1 comment
Labels: restructuration

#848 - TST - remove legacy warnings

Pull Request - State: closed - Opened by gabknight about 1 year ago - 2 comments
Labels: restructuration

#847 - Rename denoising

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 1 comment
Labels: restructuration

#846 - Rename some tractogram scripts

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 6 comments
Labels: restructuration

#845 - Rename scripts

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 4 comments
Labels: restructuration

#844 - Add multiple fs folder subject possibility

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 5 comments
Labels: restructuration

#843 - Tractometry_flow fails if not enough streamlines

Issue - State: open - Opened by arnaudbore about 1 year ago - 1 comment
Labels: Hackathon-Senior

#842 - Rename tractometry

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 4 comments

#841 - Rename tractometry files (i.e. bundle files)

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago

#840 - [WIP] Refactor scil_tractogram_project_streamlines_to_map.

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 3 comments

#839 - Adding tolerance argument to fodf msmt

Pull Request - State: closed - Opened by karanphil about 1 year ago - 5 comments

#838 - General testing for all legacy scripts

Pull Request - State: closed - Opened by gabknight about 1 year ago - 10 comments
Labels: restructuration

#837 - RF - Tractogram Scripts Renaming

Pull Request - State: closed - Opened by gabknight about 1 year ago - 4 comments

#836 - Moving OP out of the default output files from scil_btensor_metrics.py.

Pull Request - State: closed - Opened by karanphil about 1 year ago - 5 comments

#835 - Rename reorder_dwi

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 5 comments
Labels: restructuration

#834 - Rename gradients scripts

Pull Request - State: closed - Opened by karanphil about 1 year ago - 5 comments
Labels: restructuration

#833 - Add legacy test (help)

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 4 comments

#832 - FIX import new main

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 1 comment
Labels: bug, urgent

#831 - compute_divide with --fa option

Issue - State: closed - Opened by mdesco about 1 year ago

#830 - MSMT_frf and fODF inconsistency with --tolerance on b-values

Issue - State: closed - Opened by mdesco about 1 year ago

#829 - Rename volume scripts

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 7 comments

#828 - Rename convert scripts

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 10 comments
Labels: restructuration

#827 - Rename surface scripts

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 8 comments
Labels: restructuration

#826 - Speedup outlier removal

Issue - State: open - Opened by arnaudbore about 1 year ago
Labels: Hackathon-Senior

#825 - [Fix] Change wrong help description

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 1 comment

#824 - Legacy installation

Pull Request - State: closed - Opened by arnaudbore about 1 year ago - 3 comments

#823 - Rename dwi scripts

Pull Request - State: closed - Opened by karanphil about 1 year ago - 3 comments

#822 - Rename reconst scripts

Pull Request - State: closed - Opened by karanphil about 1 year ago - 13 comments
Labels: restructuration

#821 - [FIX] Use numbers rather than letters in scil_gradients_modify_axes

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 2 comments

#820 - Rename connectomics and deprecate old

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 5 comments
Labels: restructuration

#819 - Rename labels scripts and deprecate old

Pull Request - State: closed - Opened by EmmaRenauld about 1 year ago - 1 comment
Labels: restructuration

#818 - New upsampling method (PTT) for tractogram

Pull Request - State: closed - Opened by frheault about 1 year ago - 19 comments
Labels: enhancement

#817 - FIX: scil_cut_streamlines now properly handles loops

Pull Request - State: closed - Opened by AntoineTheb about 1 year ago - 7 comments
Labels: bug

#816 - --final_order not clear in new scil_gradients_modify_axes.py

Issue - State: closed - Opened by mdesco about 1 year ago - 2 comments

#815 - RF - Tracking/Tractogram Scripts

Pull Request - State: closed - Opened by gabknight about 1 year ago - 7 comments
Labels: restructuration