Ecosyste.ms: Issues

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

GitHub / pinellolab/pyrovelocity issues and pull requests

#550 - chore(deps): update dependency tornado to v6.4.1 [security] - autoclosed

Pull Request - State: closed - Opened by renovate[bot] 7 months ago
Labels: dependencies

#549 - chore(deps): update dependency sqlparse to v0.5.0 [security] - autoclosed

Pull Request - State: closed - Opened by renovate[bot] 7 months ago
Labels: dependencies

#548 - chore(deps): update dependency jupyterlab to v4.0.11 [security] - autoclosed

Pull Request - State: closed - Opened by renovate[bot] 7 months ago
Labels: dependencies

#547 - chore(deps): update dependency gitpython to v3.1.33 [security] - autoclosed

Pull Request - State: closed - Opened by renovate[bot] 7 months ago
Labels: dependencies

#546 - chore(deps): update dependency flask to v2.2.5 [security] - autoclosed

Pull Request - State: closed - Opened by renovate[bot] 7 months ago
Labels: dependencies

#545 - chore: release `0.2.0`

Pull Request - State: closed - Opened by cameronraysmith 7 months ago
Labels: documentation, enhancement, build, ci, dependencies, python, refactoring, testing

#544 - fix(images): use layer compression and composition to speed up builds

Pull Request - State: closed - Opened by cameronraysmith 7 months ago
Labels: build, ci

#543 - feat(argo): enable ARC build for oci images

Pull Request - State: closed - Opened by cameronraysmith 7 months ago
Labels: build, ci

#542 - feat(train_model): add atac layer argument

Pull Request - State: open - Opened by AlexanderAivazidis 7 months ago - 6 comments
Labels: enhancement, python

#541 - fix(flake): push images to artifact registry

Pull Request - State: closed - Opened by cameronraysmith 7 months ago
Labels: build, ci

#540 - support code-server and jupyter image builds

Issue - State: closed - Opened by cameronraysmith 7 months ago
Labels: enhancement, build

#539 - document single gene simulation, analysis, and inference

Issue - State: closed - Opened by cameronraysmith 10 months ago
Labels: enhancement

#538 - support generation of a transcriptome properties database

Issue - State: closed - Opened by cameronraysmith 10 months ago - 1 comment
Labels: enhancement, data

#537 - feat(data): generate transcriptome db and simulate deterministic data

Pull Request - State: closed - Opened by cameronraysmith 10 months ago
Labels: enhancement

#536 - simulate deterministic data

Issue - State: closed - Opened by cameronraysmith 10 months ago
Labels: enhancement

#535 - refactor(tasks): migrate tasks modules to package

Pull Request - State: closed - Opened by cameronraysmith 11 months ago
Labels: refactoring

#534 - chore(deps): update dependency black to v24 [security] - autoclosed

Pull Request - State: closed - Opened by renovate[bot] 11 months ago
Labels: dependencies

#533 - chore(deps): update dependency astropy to v5.3.3 [security] - autoclosed

Pull Request - State: closed - Opened by renovate[bot] 11 months ago - 1 comment
Labels: dependencies

#532 - docs: use local workflow execution in template notebooks

Pull Request - State: closed - Opened by cameronraysmith 11 months ago - 1 comment
Labels: documentation

#531 - feat(workflows): upload shareable summary archive

Pull Request - State: closed - Opened by cameronraysmith 11 months ago
Labels: enhancement, python

#530 - update template notebooks to use local workflow execution

Issue - State: closed - Opened by cameronraysmith 11 months ago - 1 comment
Labels: documentation

#529 - refactor python tasks to library subpackage

Issue - State: closed - Opened by cameronraysmith 11 months ago - 1 comment
Labels: refactoring

#528 - prototype workflow task to generate shareable summary archive

Issue - State: closed - Opened by cameronraysmith 11 months ago
Labels: enhancement

#527 - release pyrovelocity to conda-forge

Issue - State: closed - Opened by cameronraysmith 11 months ago
Labels: build, ci

#526 - upgrade to flytekit 1.10.7

Issue - State: closed - Opened by cameronraysmith 11 months ago
Labels: dependencies

#525 - add colab user notebook

Issue - State: closed - Opened by cameronraysmith 11 months ago
Labels: documentation

#524 - add support for pandas `>2`

Issue - State: closed - Opened by cameronraysmith 11 months ago
Labels: dependencies

#523 - add support for torch and lightning `>2`

Issue - State: closed - Opened by cameronraysmith 11 months ago
Labels: dependencies

#522 - add support for python 3.11

Issue - State: closed - Opened by cameronraysmith 11 months ago
Labels: dependencies

#521 - feat(workflows): create model summary tasks

Pull Request - State: closed - Opened by cameronraysmith 12 months ago
Labels: enhancement, python

#520 - prototype workflow task for distributed model summarization

Issue - State: closed - Opened by cameronraysmith 12 months ago
Labels: enhancement

#519 - push nix images to ghcr and gar to support image streaming

Issue - State: closed - Opened by cameronraysmith 12 months ago
Labels: enhancement, build

#518 - feat(workflows): create postprocessing tasks

Pull Request - State: closed - Opened by cameronraysmith about 1 year ago
Labels: enhancement, python

#517 - prototype workflow task for distributed post-processing

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

#516 - refactor model modules to models package

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

#515 - add tests for velocity_model

Issue - State: closed - Opened by cameronraysmith about 1 year ago
Labels: testing

#514 - add tests to data module

Issue - State: closed - Opened by cameronraysmith about 1 year ago
Labels: testing

#513 - feat(workflows): create model training tasks

Pull Request - State: closed - Opened by cameronraysmith about 1 year ago - 1 comment
Labels: enhancement, python, testing

#512 - feat(workflows): enable preprocessing tasks

Pull Request - State: closed - Opened by cameronraysmith about 1 year ago
Labels: enhancement, python

#511 - upgrade to flytekit 1.10.3

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

#510 - feat(workflows): map core workflow over multiple data sets

Pull Request - State: closed - Opened by cameronraysmith about 1 year ago
Labels: enhancement, python

#509 - map data download task over multiple data sets

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

#508 - migrate data download from external script to library internals

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

#507 - type-check velocity model at runtime to ensure consistent usage of tensor dimensions

Issue - State: closed - Opened by cameronraysmith about 1 year ago
Labels: enhancement, testing

#506 - refactor velocity model to remove unused intermediate classes

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

#505 - build(bazel): test gazelle with rules_py

Pull Request - State: open - Opened by cameronraysmith about 1 year ago

#504 - test(pyproject): update to python 3.11

Pull Request - State: closed - Opened by cameronraysmith about 1 year ago - 2 comments
Labels: enhancement

#503 - upgrade latest compatible dependencies

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

#502 - feat(workflows): setup data download tasks

Pull Request - State: closed - Opened by cameronraysmith about 1 year ago
Labels: enhancement, python

#501 - feat(ci): add shared test cache

Pull Request - State: closed - Opened by cameronraysmith about 1 year ago
Labels: enhancement, ci

#500 - support shared test cache in ci

Issue - State: closed - Opened by cameronraysmith about 1 year ago
Labels: ci, testing

#499 - feat(bazel): add test caching

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

#498 - support test caching

Issue - State: closed - Opened by cameronraysmith about 1 year ago
Labels: enhancement, testing

#497 - prototype workflow task for distributed model training

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

#496 - prototype workflow task for distributed preprocessing

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

#495 - prototype workflow task for distributed data download

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

#492 - feat: setup workflow execution

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

#491 - setup remote cluster workflow execution

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

#490 - migrate readthedocs to github pages

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

#488 - update devcontainer to use devshell

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

#486 - auto-generate conda-lock environment from poetry.lock

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

#485 - feat: add nix devshell and update ci

Pull Request - State: closed - Opened by cameronraysmith about 1 year ago
Labels: enhancement, work-in-progress

#483 - add nix flake to generate devshell

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

#482 - chore(deps): update dependency xdoctest to v1.2.0

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

#481 - chore(deps): update dependency typeguard to v4.1.5 - autoclosed

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

#480 - add 10x mouse brain dataset

Pull Request - State: open - Opened by lijc0804 over 1 year ago
Labels: enhancement

#479 - add small version of simulated data pipeline stages for fast integration test

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

#478 - enforce deterministic GPU algorithms

Issue - State: open - Opened by cameronraysmith over 1 year ago

#477 - refactor: update dev container and pod

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

#475 - support container-based development

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

#474 - chore(deps): update docker/metadata-action action to v5

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

#473 - chore(deps): update docker/login-action action to v3

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

#472 - chore(deps): update docker/build-push-action action to v5

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

#471 - chore(deps): update crazy-max/ghaction-github-labeler action to v5

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

#470 - feat: add merge queue configuration

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

#469 - support merge queue

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

#468 - Bump async-timeout from 4.0.2 to 4.0.3

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

#467 - Bump natsort from 8.3.1 to 8.4.0

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

#466 - Bump atpublic from 3.1.1 to 4.0

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

#465 - Bump deprecated from 1.2.13 to 1.2.14

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

#464 - Bump shap from 0.41.0 to 0.42.1

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

#463 - Bump docker/build-push-action from 4 to 5

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

#462 - Bump docker/login-action from 2 to 3

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

#461 - Bump docker/setup-qemu-action from 2 to 3

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

#460 - Bump docker/metadata-action from 4 to 5

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

#459 - Bump docker/setup-buildx-action from 2 to 3

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

#458 - Bump crazy-max/ghaction-github-labeler from 4.2.0 to 5.0.0

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

#457 - Bump matplotlib from 3.7.1 to 3.7.2

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

#456 - Bump flake8 from 6.0.0 to 6.1.0

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

#455 - Bump numba from 0.56.4 to 0.57.1

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

#454 - Bump flask from 2.2.3 to 2.3.3

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

#453 - Bump myst-parser from 1.0.0 to 2.0.0

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

#452 - Bump furo from 2023.5.20 to 2023.9.10 in /docs

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

#451 - Bump orjson from 3.8.10 to 3.9.7

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

#450 - Bump virtualenv from 20.23.1 to 20.24.5 in /.github/workflows

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