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Joss paper #188

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Joss paper #188

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@anilbey anilbey commented Jun 18, 2024

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@anilbey anilbey force-pushed the joss-paper branch 5 times, most recently from 01bacbc to b79b3db Compare June 18, 2024 15:02
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codecov-commenter commented Jul 5, 2024

Codecov Report

Attention: Patch coverage is 89.36170% with 5 lines in your changes missing coverage. Please review.

Project coverage is 91.24%. Comparing base (f514287) to head (54e216c).
Report is 10 commits behind head on main.

Files Patch % Lines
bluecellulab/circuit_simulation.py 75.00% 2 Missing ⚠️
bluecellulab/cell/stimuli_generator.py 94.11% 1 Missing ⚠️
...ab/circuit/circuit_access/sonata_circuit_access.py 50.00% 1 Missing ⚠️
...ecellulab/stimulus/circuit_stimulus_definitions.py 85.71% 1 Missing ⚠️
Additional details and impacted files
@@           Coverage Diff           @@
##             main     #188   +/-   ##
=======================================
  Coverage   91.24%   91.24%           
=======================================
  Files          95       95           
  Lines        5685     5708   +23     
=======================================
+ Hits         5187     5208   +21     
- Misses        498      500    +2     

☔ View full report in Codecov by Sentry.
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@anilbey anilbey marked this pull request as ready for review July 7, 2024 21:26
@anilbey anilbey marked this pull request as draft July 7, 2024 21:33
anilbey and others added 2 commits August 9, 2024 09:30
* add cvode argument to apply_multiple_stimuli (#191)

Co-authored-by: Jaquier Aurélien Tristan <[email protected]>

* Feat: support custom node sets defined in simulation config (#192)

* Add holding current to apply_multiple_stimuli (#193)

Co-authored-by: Jaquier Aurélien Tristan <[email protected]>

* Correct 'projections' for get_syn_descriptions (#187)

* add contributing guidelines (#190)

* replace amp_cv with relative_skew (#195)

* remove double CircuitSimulation (#196)

Co-authored-by: Jaquier Aurélien Tristan <[email protected]>

* CI(dependabot): Bump anothrNick/github-tag-action from 1.69.0 to 1.70.0 (#198)

Bumps [anothrNick/github-tag-action](https://github.com/anothrnick/github-tag-action) from 1.69.0 to 1.70.0.
- [Release notes](https://github.com/anothrnick/github-tag-action/releases)
- [Commits](anothrNick/github-tag-action@1.69.0...1.70.0)

---
updated-dependencies:
- dependency-name: anothrNick/github-tag-action
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>

* add bb5-tests (#197)

* add bb5-tests

* remove gitlab-ci.yml

* remove duplicate mod files for bb5-tests and merge them into the 'tests' folder

* mod files info

* add license header

* update Makefile

* update readme

* Fix: Add missing 'units' attribute to timestamp in example test HDF5 file (#200)

* add gh action for paper draft

* add paper markdown

* update draft-pdf.yml

* fix yaml error in paper.md

* add explanation to draft-pdf.yml

* delete .gitlab-ci.yml for joss-paper

* reword draft-pdf rule

* trigger draft-pdf in any push

* add doi for the unix programming env

* add doi for agile software development Martin

* add doi for parnas1972criteria

* add explanation for figure1

---------

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: Aurélien Jaquier <[email protected]>
Co-authored-by: Jaquier Aurélien Tristan <[email protected]>
Co-authored-by: ilkilic <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
* update mypy reference

* update mypy citation url
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