pinellolab/pyrovelocity issues and pull requests

#449 - chore(deps): update dependency cospar to v0.3.1

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 1 comment
Labels: dependencies, python

#448 - chore(deps): update dependency black to v23.12.1 - autoclosed

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#447 - chore(deps): update dependency astropy to v5.3.4 - autoclosed

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#446 - Bump orjson from 3.8.10 to 3.9.5

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#445 - Bump numpyro from 0.11.0 to 0.13.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#444 - Bump googleapis-common-protos from 1.59.0 to 1.60.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#443 - Bump pathspec from 0.11.1 to 0.11.2

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#442 - Bump werkzeug from 2.3.3 to 2.3.7

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

#441 - chore(deps): update dependency anndata to v0.10.3 - autoclosed

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#440 - chore(deps): update crazy-max/ghaction-github-labeler action to v4.2.0

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

#439 - Bump scikit-learn from 1.2.2 to 1.3.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#438 - Bump tomlkit from 0.11.7 to 0.12.1

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#437 - Bump markdown from 3.4.3 to 3.4.4

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#436 - Bump stevedore from 5.0.0 to 5.1.0

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

#435 - Bump ruamel-yaml from 0.17.21 to 0.17.32

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

#434 - chore(deps): update condaforge/mambaforge docker tag to v23.3.1

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 1 comment
Labels: build, dependencies

#433 - chore(deps): update pypa/gh-action-pypi-publish action to v1.8.10

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

#432 - chore(deps): update dependency pytorch-lightning to v1.9.5 - autoclosed

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#431 - chore(deps): update dependency pyro-ppl to v1.8.6 - autoclosed

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#430 - chore(deps): update dependency nbsphinx to v0.9.3

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 1 comment

#429 - chore(deps): update dependency jupyter-core to v5.7.0 - autoclosed

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#428 - chore(release): `v0.1.3`

Pull Request - State: closed - Opened by cameronraysmith over 1 year ago - 2 comments
Labels: build

#427 - update minor release `v0.1.3`

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: build

#426 - chore(deps): update dependency typeguard to v4

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 1 comment

#425 - chore(deps): update dependency google-cloud-pipeline-components to v1.0.45 - autoclosed

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#424 - chore(deps): update dependency dparse to v0.6.3

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

#423 - Dependency Dashboard

Issue - State: open - Opened by renovate[bot] over 1 year ago
Labels: dependencies

#422 - chore(deps): update dependency click to v8.1.7

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago
Labels: dependencies

#421 - disable dependabot

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: ci, dependencies

#420 - disable dependabot

Pull Request - State: closed - Opened by cameronraysmith over 1 year ago
Labels: ci, dependencies

#419 - chore(deps): update dependency mlflow to v2.11.3 [security] - autoclosed

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#418 - add renovate

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: ci, dependencies

#417 - configure renovate

Pull Request - State: closed - Opened by renovate[bot] over 1 year ago
Labels: ci, dependencies

#416 - Bump black from 23.3.0 to 23.7.0

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

#415 - Bump alembic from 1.10.4 to 1.12.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#414 - Bump actions/checkout from 3 to 4

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

#413 - Bump crazy-max/ghaction-github-labeler from 4.1.0 to 4.2.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, github_actions

#412 - retrain across all data sets with model 1

Pull Request - State: closed - Opened by cameronraysmith over 1 year ago - 1 comment
Labels: enhancement, performance

#411 - Bump sphinx from 7.0.1 to 7.2.5 in /docs

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#410 - CML PR for master 91df43ab

Pull Request - State: closed - Opened by cameronraysmith over 1 year ago

#409 - fix: run individual summarize stages in parallel

Pull Request - State: closed - Opened by cameronraysmith over 1 year ago - 1 comment
Labels: ci

#408 - fix: pin versions for model1 computations

Pull Request - State: closed - Opened by cameronraysmith over 1 year ago - 1 comment
Labels: bug, dependencies

#407 - package versions incompatible with model one

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: bug

#406 - Bump virtualenv from 20.23.1 to 20.24.4 in /.github/workflows

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#405 - Bump nbsphinx from 0.9.2 to 0.9.3 in /docs

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#404 - Bump sphinx from 7.0.1 to 7.2.4 in /docs

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#403 - Bump mizani from 0.9.0 to 0.10.0

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

#402 - Bump sphinx from 7.0.1 to 7.2.3 in /docs

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#401 - Bump poetry from 1.5.1 to 1.6.1 in /.github/workflows

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#400 - Bump furo from 2023.5.20 to 2023.8.19 in /docs

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#399 - Bump poetry from 1.5.1 to 1.6.0 in /.github/workflows

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

#398 - Bump sphinx-click from 4.4.0 to 5.0.1

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#397 - refactor `_get_fn_args_from_batch`

Pull Request - State: closed - Opened by cameronraysmith over 1 year ago - 2 comments
Labels: ci, python, refactoring

#396 - `_get_fn_args_from_batch` is a training utility rather than a part of _velocity_model

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: refactoring

#395 - labeler workflow fails due to insufficient permissions

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: ci

#394 - apparent discontinuity between activation and inactivation in phase portraits

Issue - State: closed - Opened by cameronraysmith over 1 year ago - 1 comment
Labels: bug

#393 - Bump sphinx from 7.0.1 to 7.2.2 in /docs

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

#392 - Bump furo from 2023.5.20 to 2023.8.17 in /docs

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

#391 - Bump sphinx-click from 4.4.0 to 5.0.1 in /docs

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

#390 - Bump sphinx from 7.0.1 to 7.2.1 in /docs

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

#389 - Bump virtualenv from 20.23.1 to 20.24.3 in /.github/workflows

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

#388 - Bump pypa/gh-action-pypi-publish from 1.8.7 to 1.8.10

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

#387 - Bump sphinx from 7.0.1 to 7.1.2 in /docs

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

#386 - Bump sphinx from 7.0.1 to 7.1.1 in /docs

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

#385 - Bump furo from 2023.5.20 to 2023.7.26 in /docs

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

#384 - Bump sphinx from 7.0.1 to 7.1.0 in /docs

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

#383 - Bump virtualenv from 20.23.1 to 20.24.2 in /.github/workflows

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

#382 - Bump pip from 23.1.2 to 23.2.1 in /.github/workflows

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

#381 - Bump sphinx-autodoc-typehints from 1.23.3 to 1.24.0 in /docs

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

#380 - Bump virtualenv from 20.23.1 to 20.24.1 in /.github/workflows

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

#379 - Bump flake8-bugbear from 23.3.23 to 23.7.10

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

#378 - Bump virtualenv from 20.23.1 to 20.24.0 in /.github/workflows

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

#377 - Bump pip from 23.1.2 to 23.2 in /.github/workflows

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

#376 - Bump pypa/gh-action-pypi-publish from 1.8.7 to 1.8.8

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, github_actions

#375 - use infer_discrete for posterior predictive plots

Pull Request - State: closed - Opened by qinqian over 1 year ago - 1 comment
Labels: bug

#374 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: open - Opened by pre-commit-ci[bot] over 1 year ago - 1 comment

#373 - Bump nox-poetry from 1.0.2 to 1.0.3 in /.github/workflows

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

#372 - pin dvc >3.0

Pull Request - State: closed - Opened by cameronraysmith over 1 year ago - 1 comment
Labels: enhancement

#371 - update to dvc 3.0

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: enhancement

#370 - train model 2 with sample-based enumeration

Pull Request - State: closed - Opened by cameronraysmith over 1 year ago - 1 comment
Labels: enhancement

#369 - rerun model training after conversion to sampling-based enumeration

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: enhancement

#368 - evaluate results without exact enumeration

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: bug

#367 - use `Trace_ELBO` (disable exact enumeration)

Pull Request - State: closed - Opened by qinqian over 1 year ago - 1 comment
Labels: bug

#366 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] over 1 year ago - 1 comment

#365 - updates for compatibility with cml 0.19.1

Pull Request - State: closed - Opened by cameronraysmith over 1 year ago - 2 comments
Labels: dependencies

#364 - update to cml 0.19.1

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: dependencies

#363 - indicate shared time boundaries and offsets on phase portraits

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: enhancement

#362 - Bump release-drafter/release-drafter from 5.23.0 to 5.24.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago
Labels: dependencies, github_actions

#361 - Bump pypa/gh-action-pypi-publish from 1.8.6 to 1.8.7

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

#360 - Bump sphinx-autodoc-typehints from 1.23.0 to 1.23.3 in /docs

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

#359 - add shared time markers to phase portraits

Pull Request - State: closed - Opened by qinqian over 1 year ago - 1 comment
Labels: enhancement

#358 - add pbmc5k data set

Pull Request - State: closed - Opened by cameronraysmith over 1 year ago - 1 comment
Labels: enhancement

#357 - train model on pbmc5k data set

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: enhancement

#356 - Bump kfp from 1.8.21 to 1.8.22

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

#355 - Bump alembic from 1.10.4 to 1.11.1

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 6 comments
Labels: dependencies, python

#354 - support temporal extrapolation in phase portrait plots

Issue - State: closed - Opened by cameronraysmith over 1 year ago
Labels: enhancement

#352 - Bump flake8-bugbear from 23.3.23 to 23.6.5

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#350 - Bump virtualenv from 20.21.0 to 20.23.1 in /.github/workflows

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

#349 - Bump sphinx-autodoc-typehints from 1.23.0 to 1.23.2 in /docs

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies, python

#348 - use predictive with one time point and 30 posterior samples from the …

Pull Request - State: closed - Opened by qinqian over 1 year ago - 1 comment
Labels: enhancement

GitHub / pinellolab/pyrovelocity issues and pull requests