Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / FZJ-INM1-BDA/siibra-python issues and pull requests

#600 - Building mask from Julich parent node fails

Issue - State: open - Opened by dickscheid about 1 month ago - 1 comment

#599 - Downstream issues after obtaining empty gene expression features

Issue - State: open - Opened by dickscheid about 2 months ago
Labels: bug

#598 - Fix: get_region(spec) exact match if spec is a region key

Pull Request - State: open - Opened by AhmetNSimsek 3 months ago

#597 - Environment variables are not casted to correct type

Issue - State: closed - Opened by ch-schiffer 3 months ago

#596 - Default fetch() for probability maps fails

Issue - State: closed - Opened by dickscheid 3 months ago - 1 comment
Labels: bug

#594 - refactor: use attributes

Pull Request - State: open - Opened by xgui3783 5 months ago - 4 comments

#593 - CI: Mirror workflow is failing

Issue - State: open - Opened by AhmetNSimsek 5 months ago
Labels: bug

#592 - Test examples as a part of e2e. Create docs on push/PR to main and on publish

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

#591 - Fix boundingbox transformation

Pull Request - State: open - Opened by dickscheid 5 months ago - 1 comment

#590 - test: fast ci if regular branch, full suite if PR to main

Pull Request - State: closed - Opened by xgui3783 5 months ago

#589 - fix: memory usage when warming the cache

Pull Request - State: closed - Opened by xgui3783 5 months ago - 2 comments

#588 - fix: add assertion error message

Pull Request - State: closed - Opened by xgui3783 6 months ago

#587 - fix: python closure is weird

Pull Request - State: closed - Opened by xgui3783 6 months ago

#585 - Test: add cron job to test tutorials regularly

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

#584 - Doc: use book theme for docs and general maint

Pull Request - State: open - Opened by AhmetNSimsek 6 months ago - 1 comment
Labels: documentation

#583 - Use precalculated bounding boxes of image-features to speed up image feature query

Pull Request - State: open - Opened by AhmetNSimsek 6 months ago
Labels: enhancement

#582 - feat: update how related regions are fetched

Pull Request - State: closed - Opened by xgui3783 7 months ago - 7 comments

#581 - [maint] `Factory.from_json` overwrites `filename` attribute, if exists

Issue - State: open - Opened by xgui3783 7 months ago
Labels: maintenance

#580 - [schema] inconsistent map type

Issue - State: open - Opened by xgui3783 7 months ago
Labels: maintenance

#579 - New: experimental module, with draft classes for cortical patch sampling

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

#578 - use datasets of the spaces if templates don't have any specified

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

#577 - fix: pointset intersection with boundingbox fails if no points inside

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

#576 - fix: allen gene exp query w a list of genes

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

#575 - Read freesurfer .annot files as fsaverage mesh labels

Pull Request - State: closed - Opened by AhmetNSimsek 7 months ago
Labels: enhancement

#574 - Fix: fetch specific label from gii labels

Pull Request - State: closed - Opened by AhmetNSimsek 7 months ago - 2 comments
Labels: bug

#573 - Documentation for architecture decision records

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

#572 - Use `nilearn.resample_to_img` for merging fragments

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

#571 - urls -> doi_or_url and returns a list of string

Pull Request - State: closed - Opened by AhmetNSimsek 7 months ago

#570 - Print versions in version validation and fix bug

Pull Request - State: closed - Opened by AhmetNSimsek 7 months ago

#569 - Proper treatment of "hybrid" anatomical anchors

Issue - State: open - Opened by dickscheid 7 months ago
Labels: enhancement

#568 - Reformat `feature.name` and reintorudce `data` and `plot()` for `CompoundFeature`s

Pull Request - State: closed - Opened by AhmetNSimsek 7 months ago - 5 comments
Labels: important, urgent, maintenance

#567 - Exclude background from connected_components

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

#566 - Add Volume.evaluate_points() and fix voxel access for _points_inside

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

#565 - fix: volume._pointsinside resample img to template

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

#564 - `get_region("6ma")` returns "posterior medial superior frontal gyrus" instead

Issue - State: open - Opened by xgui3783 7 months ago - 2 comments
Labels: user feedback

#563 - fix: write lock for warmup

Pull Request - State: closed - Opened by xgui3783 7 months ago - 2 comments

#562 - Maint: `volume.fetch`

Pull Request - State: closed - Opened by AhmetNSimsek 8 months ago - 1 comment
Labels: maintenance

#561 - Introduce merging Neuroglancer fragments

Pull Request - State: closed - Opened by AhmetNSimsek 8 months ago - 1 comment
Labels: bug, enhancement

#560 - During merging of PR #480, some changes on provider submodules were lost

Issue - State: open - Opened by AhmetNSimsek 8 months ago
Labels: maintenance

#559 - feat: add encode URL point

Pull Request - State: closed - Opened by xgui3783 8 months ago - 1 comment

#558 - Valid behaviors for points with None space

Issue - State: open - Opened by dickscheid 8 months ago - 2 comments
Labels: enhancement

#557 - Mesh fetching fails for some combinations

Issue - State: closed - Opened by dickscheid 8 months ago - 7 comments

#556 - Showing live messages to users

Issue - State: open - Opened by AhmetNSimsek 8 months ago
Labels: enhancement

#555 - Removal of EBRAINS access token

Issue - State: closed - Opened by romina1601 8 months ago - 2 comments

#554 - Feat map to zip

Pull Request - State: open - Opened by AhmetNSimsek 8 months ago
Labels: enhancement, urgent, maintenance

#553 - Experimental: feature refactor using attributes

Pull Request - State: closed - Opened by xgui3783 8 months ago - 4 comments

#552 - `Feature.export` should be renamed to `Feature.to_zip`

Issue - State: closed - Opened by xgui3783 8 months ago - 2 comments

#551 - Neuroglancer fragments cannot be merged

Issue - State: closed - Opened by AhmetNSimsek 8 months ago - 1 comment
Labels: bug

#550 - Use codecov v3

Pull Request - State: closed - Opened by AhmetNSimsek 8 months ago

#549 - Neuroglancer volume fetching

Pull Request - State: closed - Opened by AhmetNSimsek 8 months ago - 1 comment
Labels: enhancement, maintenance

#548 - fix: cancel previous workflows

Pull Request - State: closed - Opened by xgui3783 8 months ago - 1 comment

#547 - fix: takes long time to retrieve feature.dataset.name

Pull Request - State: closed - Opened by xgui3783 8 months ago - 1 comment

#546 - Template flow integration for spaces and parcellations

Issue - State: open - Opened by AhmetNSimsek 8 months ago
Labels: data

#545 - Allow masking volumes with other volumes

Issue - State: open - Opened by AhmetNSimsek 8 months ago
Labels: enhancement

#544 - fix: info uses siibra.retrieval module for local file cache

Pull Request - State: closed - Opened by xgui3783 8 months ago - 1 comment

#543 - Use Github repo connector for configurations

Pull Request - State: closed - Opened by AhmetNSimsek 8 months ago - 2 comments
Labels: enhancement, maintenance

#542 - update siibra-python code to use new configuration repo

Issue - State: closed - Opened by xgui3783 9 months ago

#541 - split json-schema/schema validation to its own repository

Issue - State: open - Opened by xgui3783 9 months ago - 1 comment

#540 - migrate configuration from gitlab to github

Issue - State: closed - Opened by xgui3783 9 months ago - 4 comments

#539 - Add DZI support

Issue - State: open - Opened by AhmetNSimsek 9 months ago
Labels: enhancement, user feedback

#538 - Fix image query

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

#537 - refactor: warm cache

Pull Request - State: closed - Opened by xgui3783 9 months ago - 2 comments

#536 - Hotfix allen api paging

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

#534 - Integrate siibra-cli as an optional package

Pull Request - State: open - Opened by AhmetNSimsek 9 months ago - 1 comment
Labels: enhancement

#533 - Example 02-007 (adding custom parcellation) fails since AICHA atlas webpage responds with 502 as of 12.01.2024

Issue - State: closed - Opened by AhmetNSimsek 9 months ago - 1 comment
Labels: documentation, data

#532 - feat: obtain colorscale of a connectivity profile

Pull Request - State: closed - Opened by AhmetNSimsek 9 months ago

#531 - Fix assigning uncertain points to labelled maps #526

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

#530 - [bug] features.get should not allow fuzzy matches, unless specified

Issue - State: closed - Opened by xgui3783 9 months ago - 5 comments
Labels: important, user feedback

#529 - Fix: from_pointset kde volume calculation

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

#528 - volume.from_pointset needs revision

Issue - State: open - Opened by dickscheid 9 months ago - 1 comment

#527 - Use of cached_property

Issue - State: closed - Opened by ch-schiffer 9 months ago - 1 comment
Labels: caching&persistence, maintenance

#526 - Assignment of uncertain points to labelled maps not working

Issue - State: closed - Opened by dickscheid 9 months ago - 2 comments
Labels: bug

#525 - Maint sparseindex

Pull Request - State: open - Opened by AhmetNSimsek 10 months ago - 1 comment
Labels: maintenance

#524 - experimental: control siibra-explorer

Pull Request - State: open - Opened by xgui3783 10 months ago - 1 comment

#523 - Add the first location example

Pull Request - State: closed - Opened by AhmetNSimsek 10 months ago - 1 comment
Labels: maintenance

#522 - Prerelease maint

Pull Request - State: closed - Opened by AhmetNSimsek 10 months ago - 1 comment
Labels: maintenance

#521 - Maint: feature module

Pull Request - State: closed - Opened by AhmetNSimsek 10 months ago - 1 comment
Labels: maintenance

#520 - Assign maps and compute relations between parcellations

Pull Request - State: open - Opened by AhmetNSimsek 10 months ago - 3 comments
Labels: enhancement

#519 - Add support for python 3.11 and 3.12

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

#518 - VEP parcellation doi

Issue - State: closed - Opened by i-Zaak 10 months ago - 3 comments

#517 - Maint: parc.find_regions as module method. clarify find_regions

Pull Request - State: open - Opened by AhmetNSimsek 10 months ago - 3 comments
Labels: maintenance

#516 - feat: allow meshes to be exported

Pull Request - State: closed - Opened by xgui3783 10 months ago - 3 comments
Labels: enhancement

#515 - `provider.boundingbox` -> `provider.get_boundingbox()`

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

#514 - Doc: run_stale_examples locally

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

#512 - Drop support for EOL Python 3.7

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

#511 - Only attempt RTD build for upstream

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

#510 - Increase intensity profile compounding speed

Pull Request - State: closed - Opened by AhmetNSimsek 11 months ago - 1 comment
Labels: maintenance

#509 - Some CellDensityProfiles have invalid last boundary position

Issue - State: open - Opened by AhmetNSimsek 11 months ago - 1 comment
Labels: data

#507 - bigbrain profiles: pull meshes and profiles from ebrains. Add dataset connection.

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

#506 - feat: add siibra-explorer module

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

#505 - Introduce PointDistribution feature

Pull Request - State: open - Opened by AhmetNSimsek 11 months ago - 2 comments
Labels: enhancement

#503 - feat: add siibra-explorer module

Pull Request - State: closed - Opened by xgui3783 11 months ago - 1 comment

#502 - feat: add maps from nifti and label information

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