Ecosyste.ms: Issues

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

GitHub / NeuroML/pyNeuroML issues and pull requests

#428 - Added segment picking from faces

Pull Request - State: open - Opened by lej0hn 18 days ago
Labels: T: enhancement

#426 - Add functionality to overlay data on to 3D visualisations

Issue - State: open - Opened by sanjayankur31 19 days ago
Labels: T: enhancement

#425 - feat(vispy): simplify mesh creation

Pull Request - State: closed - Opened by sanjayankur31 21 days ago

#424 - Feat: improve cached method invocations

Pull Request - State: closed - Opened by sanjayankur31 21 days ago

#423 - Cached functions: cast arguments to hashable types before invocation

Issue - State: closed - Opened by sanjayankur31 21 days ago
Labels: T: enhancement

#421 - PR 407 + tweaks

Pull Request - State: closed - Opened by sanjayankur31 about 1 month ago

#420 - Add segment picking ability in 3D

Pull Request - State: closed - Opened by lej0hn about 1 month ago - 4 comments

#419 - To v1.3.8; allows xml or sbml files to be validated as SBML

Pull Request - State: closed - Opened by pgleeson about 1 month ago

#418 - Changes for NeuroML v2.3.1 release

Pull Request - State: closed - Opened by pgleeson about 1 month ago

#417 - To v1.3.7 & use jnml v0.13.3

Pull Request - State: closed - Opened by pgleeson about 1 month ago

#416 - Changes from master merged in

Pull Request - State: closed - Opened by pgleeson about 1 month ago

#415 - Visualization: handle referenced morphologies

Pull Request - State: closed - Opened by sanjayankur31 about 2 months ago - 2 comments
Labels: T: enhancement

#414 - Morphology plotting: handle cells where morphology is a standalone element that is referenced in cell

Issue - State: closed - Opened by sanjayankur31 about 2 months ago - 3 comments
Labels: T: bug

#413 - Improve checks to ensure that the right input files are provided for each pynml command

Pull Request - State: closed - Opened by sanjayankur31 about 2 months ago - 2 comments
Labels: S: ready for review

#412 - Test multiple shading filters

Pull Request - State: closed - Opened by lej0hn about 2 months ago - 7 comments

#411 - fix(moose): correct math operator

Pull Request - State: closed - Opened by sanjayankur31 2 months ago

#410 - Installation issues: Vispy and Conda?

Issue - State: closed - Opened by sanjayankur31 2 months ago - 2 comments
Labels: T: bug

#408 - Feat/upright 2d plotter: enable upright for 2d morph plots also

Pull Request - State: closed - Opened by sanjayankur31 3 months ago - 1 comment
Labels: T: enhancement

#407 - Feat/export swc:- This aims to add a file which exports SWC file into neuroml.

Pull Request - State: closed - Opened by AdityaBITMESRA 3 months ago - 15 comments
Labels: S: ready for review

#406 - Check if users are passing the correct file type for various pynml commands

Issue - State: closed - Opened by sanjayankur31 3 months ago - 5 comments
Labels: T: enhancement, good first issue

#405 - feature/Added lighting

Pull Request - State: closed - Opened by lej0hn 3 months ago - 8 comments
Labels: T: enhancement

#404 - Feat/export swc-Adds function to export SWC graph to a new SWC file

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

#403 - Add SWC exporter

Issue - State: closed - Opened by sanjayankur31 3 months ago - 2 comments
Labels: T: enhancement

#402 - Add function to export SWC graph to a new SWC file

Issue - State: closed - Opened by sanjayankur31 3 months ago - 1 comment
Labels: T: enhancement

#401 - add downloads URL as biosimulations.submit_simulation_archive return value

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

#400 - Review of #384 with a few tweaks

Pull Request - State: closed - Opened by sanjayankur31 3 months ago

#399 - feat/Make 3d visualization compatibile with jupyter notebooks

Pull Request - State: closed - Opened by lej0hn 3 months ago - 5 comments

#398 - Support visualisation of morphology only files

Pull Request - State: closed - Opened by sanjayankur31 3 months ago - 1 comment
Labels: T: enhancement

#397 - Allow visualization of morphology only NML files

Issue - State: closed - Opened by sanjayankur31 3 months ago
Labels: T: enhancement

#396 - To v1.3.2 and use jnml v0.13.2; pinning numpy<2.0

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

#395 - Deps and CI fixes

Pull Request - State: closed - Opened by sanjayankur31 4 months ago - 3 comments

#394 - ci: tweak pip command

Pull Request - State: closed - Opened by sanjayankur31 4 months ago

#393 - WIP: testing with py3.13

Pull Request - State: open - Opened by sanjayankur31 4 months ago

#391 - ci: update comment bit to also work on PRs from forks

Pull Request - State: closed - Opened by sanjayankur31 4 months ago

#390 - Add `bqbiol.is`

Pull Request - State: closed - Opened by sanjayankur31 4 months ago - 1 comment

#388 - Speed up unit tests

Issue - State: closed - Opened by sanjayankur31 4 months ago - 1 comment
Labels: T: enhancement

#387 - ci: add coverage to pull requests

Pull Request - State: closed - Opened by sanjayankur31 4 months ago - 4 comments

#386 - Feat/coverage

Pull Request - State: closed - Opened by sanjayankur31 4 months ago

#385 - Enable coverage info on the repo

Issue - State: closed - Opened by sanjayankur31 4 months ago - 1 comment

#384 - Feat/swc loaderfile Adding SWC loader to load SWC file

Pull Request - State: closed - Opened by AdityaBITMESRA 4 months ago - 17 comments
Labels: T: enhancement

#383 - chore: linter fixes

Pull Request - State: closed - Opened by sanjayankur31 4 months ago

#382 - Feat/make generate plot clicky

Pull Request - State: closed - Opened by sanjayankur31 4 months ago

#380 - Feat/loadswc Adding SWC loader to load SWC file

Pull Request - State: closed - Opened by AdityaBITMESRA 4 months ago

#379 - Feature Draft/ Use PCA to visualize cell 'upwards'

Pull Request - State: closed - Opened by lej0hn 4 months ago - 29 comments

#378 - fix(setup.cfg): include template channel file in data

Pull Request - State: closed - Opened by sanjayankur31 4 months ago

#377 - issue 303: plot spikes

Pull Request - State: closed - Opened by sanjayankur31 4 months ago - 4 comments

#376 - Tests on master failing

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

#375 - Add a SWC loader

Issue - State: closed - Opened by sanjayankur31 4 months ago - 3 comments
Labels: T: enhancement

#374 - Feat/plotting checks

Pull Request - State: closed - Opened by sanjayankur31 4 months ago - 1 comment

#373 - Feat/get ks channel states

Pull Request - State: closed - Opened by sanjayankur31 4 months ago

#372 - Make getting model file list SBML aware

Issue - State: open - Opened by sanjayankur31 4 months ago
Labels: T: enhancement

#371 - chore: improve contributing documentation

Pull Request - State: closed - Opened by sanjayankur31 4 months ago
Labels: C: docs

#370 - docs: add lej0hn as a contributor for code

Pull Request - State: closed - Opened by allcontributors[bot] 4 months ago

#369 - Implement exporting to Neuroglancer formats

Issue - State: open - Opened by sanjayankur31 4 months ago - 1 comment
Labels: T: enhancement

#368 - Better handling of nested if statements in xpp parser

Pull Request - State: closed - Opened by pgleeson 4 months ago

#367 - Added translate_cell function

Pull Request - State: closed - Opened by lej0hn 5 months ago - 10 comments

#366 - Added function translate_cell

Pull Request - State: closed - Opened by lej0hn 5 months ago

#365 - Feat/test animate plots

Pull Request - State: closed - Opened by sanjayankur31 5 months ago

#364 - docs: add YBCS as a contributor for code, and test

Pull Request - State: closed - Opened by allcontributors[bot] 5 months ago

#363 - docs: add lej0hn as a contributor for review

Pull Request - State: closed - Opened by allcontributors[bot] 5 months ago

#362 - Implement vispy based viewing of SWC files

Issue - State: closed - Opened by sanjayankur31 5 months ago - 3 comments
Labels: T: enhancement

#361 - feat(rotation): allow users to pick if they want a copy

Pull Request - State: closed - Opened by sanjayankur31 5 months ago - 2 comments
Labels: S: ready for review

#360 - Add utility function to translate cell to that soma is at origin

Issue - State: closed - Opened by sanjayankur31 5 months ago
Labels: T: enhancement

#359 - vispy-viewer: make it run in jupyter notebooks using jupyter_rfb

Issue - State: closed - Opened by sanjayankur31 5 months ago - 1 comment
Labels: T: enhancement

#358 - [Bug] pynml-plotmorph: vispy: no mouse events

Issue - State: open - Opened by Sietse20 5 months ago - 3 comments
Labels: T: bug

#357 - Add analysis of KineticState channels to `pynml-channelanalysis`

Issue - State: open - Opened by sanjayankur31 5 months ago
Labels: T: enhancement

#356 - fix(nml-channel-analysis): include `ionChannelVShift`

Pull Request - State: closed - Opened by sanjayankur31 5 months ago

#355 - Updates to xpp running/plotting

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

#354 - Annotations: completes exporting and extraction of annotations that we use in NeuroML

Pull Request - State: closed - Opened by sanjayankur31 5 months ago
Labels: T: enhancement

#353 - More annotation tweaks: remove unused ids, use `rdf:li`

Pull Request - State: closed - Opened by sanjayankur31 5 months ago
Labels: T: enhancement

#352 - feat(pynml-modchananalysis): add labels and fix file name

Pull Request - State: closed - Opened by sanjayankur31 5 months ago - 2 comments
Labels: T: enhancement

#351 - LEMS does not like RDF metadata (while using `pynml-channelanalysis`)?

Issue - State: open - Opened by sanjayankur31 5 months ago - 1 comment
Labels: T: bug

#350 - feat(annotations): improve for use as embedded annotations

Pull Request - State: closed - Opened by sanjayankur31 5 months ago

#349 - feat(annotations): extend to allow both miriam and biosimulations styles

Pull Request - State: closed - Opened by sanjayankur31 5 months ago
Labels: T: enhancement

#348 - animate matplotlib plots

Pull Request - State: closed - Opened by YBCS 5 months ago - 5 comments
Labels: T: enhancement

#347 - Extend `pynml` to include a `-biosimulations` flag to submit simulations

Issue - State: open - Opened by sanjayankur31 5 months ago
Labels: T: enhancement

#346 - feat(optional-deps): add warnings to inform users of optional packages

Pull Request - State: closed - Opened by sanjayankur31 5 months ago
Labels: T: enhancement, S: ready for review

#345 - chore: move to ruff

Pull Request - State: closed - Opened by sanjayankur31 5 months ago

#344 - creating and sending omex archives to biosimulations

Pull Request - State: closed - Opened by sanjayankur31 5 months ago - 1 comment
Labels: T: enhancement

#343 - Minor fixes and tests for XPP export; to v1.2.10

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

#342 - Feat/recv2- Recording functionality

Pull Request - State: closed - Opened by AdityaBITMESRA 6 months ago - 1 comment
Labels: S: waiting on reporter

#341 - Draft - Added cell realignment with pca

Pull Request - State: closed - Opened by lej0hn 6 months ago
Labels: T: enhancement

#339 - feat(annotations): add wrapper to write annotations

Pull Request - State: closed - Opened by sanjayankur31 6 months ago
Labels: T: enhancement, S: ready for review

#337 - Implement functions to send generated OMEX file to Biomodels using API

Issue - State: open - Opened by sanjayankur31 6 months ago
Labels: T: enhancement

#336 - Implement metadata generation for OMEX file generation

Issue - State: open - Opened by sanjayankur31 6 months ago
Labels: T: enhancement

#335 - pynml-archive: add `-sedml`

Pull Request - State: closed - Opened by sanjayankur31 6 months ago - 5 comments
Labels: T: enhancement, S: ready for review

#334 - Issue/318- Adding Video recording functionality to vispy viewer

Pull Request - State: closed - Opened by AdityaBITMESRA 6 months ago - 1 comment
Labels: T: enhancement, S: waiting on reporter

#333 - Feat/issue #318- Video recording functionality

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

#332 - feat(LEMSSimulation): allow using float/str for duration/dt

Pull Request - State: closed - Opened by sanjayankur31 6 months ago - 1 comment
Labels: T: enhancement, S: ready for review

#331 - docs: add YBCS as a contributor for code

Pull Request - State: closed - Opened by allcontributors[bot] 6 months ago

#330 - [Bug] ExportSWC: exceptions are wrong

Issue - State: open - Opened by sanjayankur31 6 months ago - 2 comments
Labels: T: bug

#329 - Add option to generate SEDML file from LEMS and use this as master in exported OMEX archive

Issue - State: open - Opened by pgleeson 6 months ago
Labels: T: enhancement, Help wanted, good first issue