Ecosyste.ms: Issues

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

GitHub / broadinstitute/cromwell-tools issues and pull requests

#109 - [Bug] jes_gcs_root is always default

Issue - State: open - Opened by morganecf about 2 years ago - 1 comment
Labels: bug

#108 - Adding workflow URL option

Pull Request - State: closed - Opened by AlesMaver about 2 years ago - 1 comment

#107 - Bump numpy from 1.15.2 to 1.22.0 in /notebooks

Pull Request - State: open - Opened by dependabot[bot] over 2 years ago
Labels: dependencies

#106 - Update docs and tests to indicate Python3.5 support.

Pull Request - State: closed - Opened by rexwangcc almost 5 years ago - 1 comment

#105 - ADD #104 remove use of f-string literals to allow support for python3.5

Pull Request - State: closed - Opened by fuego0607 almost 5 years ago

#104 - cromwell-tools does not support python3.5

Issue - State: closed - Opened by fuego0607 almost 5 years ago - 3 comments
Labels: enhancement

#102 - Add code cov for PR tests.

Pull Request - State: closed - Opened by rexwangcc almost 5 years ago - 1 comment

#101 - Add test cases for CLI.

Pull Request - State: closed - Opened by rexwangcc almost 5 years ago

#100 - CLI shows help without args

Pull Request - State: closed - Opened by rexwangcc almost 5 years ago

#99 - Switch to GitHub actions

Pull Request - State: closed - Opened by rexwangcc almost 5 years ago

#98 - [CI/CD] Migrate CI/CD to Github Actions

Issue - State: closed - Opened by rexwangcc almost 5 years ago
Labels: tech debt

#97 - Error when running with no input arguments

Issue - State: closed - Opened by lbergelson almost 5 years ago - 2 comments

#96 - Adding response object to HTTPError raised by cromwell_tools.api

Pull Request - State: closed - Opened by kgalens about 5 years ago - 1 comment

#95 - HTTPError Raised without including requests.Response object

Issue - State: closed - Opened by kgalens about 5 years ago

#94 - Update requirements for task_runtime functionality

Pull Request - State: closed - Opened by charlesdyan about 5 years ago

#93 - Add task runtime diagnostic

Pull Request - State: closed - Opened by charlesdyan about 5 years ago

#92 - Add patch labels to api

Pull Request - State: closed - Opened by charlesdyan about 5 years ago

#91 - Fix the broken links on readme.

Pull Request - State: closed - Opened by rexwangcc over 5 years ago

#90 - Broken link in Read The Docs

Issue - State: closed - Opened by kbergin over 5 years ago - 1 comment

#89 - Fix the bug introduced in the last 2 PRs.

Pull Request - State: closed - Opened by rexwangcc over 5 years ago

#88 - Automate the PyPI release process with Travis CI.

Pull Request - State: closed - Opened by rexwangcc over 5 years ago

#87 - Automate the publish process

Issue - State: closed - Opened by rexwangcc over 5 years ago - 1 comment
Labels: enhancement

#85 - Fix a typo in the setup.py file.

Pull Request - State: closed - Opened by rexwangcc over 5 years ago

#84 - missing comma in setup.py ?

Issue - State: closed - Opened by notestaff over 5 years ago - 1 comment

#83 - [Feature Request] New version detection

Issue - State: open - Opened by rexwangcc over 5 years ago - 2 comments
Labels: enhancement

#82 - updating travis badge to point to travis-ci.com

Pull Request - State: closed - Opened by lbergelson over 5 years ago

#81 - [Feature Request] Submit jobs with labels through the command line directly

Issue - State: open - Opened by rexwangcc over 5 years ago
Labels: enhancement

#80 - [Feature Request] A diagnostic/analysis toolkit for workflows development

Issue - State: open - Opened by rexwangcc over 5 years ago
Labels: enhancement

#79 - Add contribute sections to the readme

Issue - State: open - Opened by rexwangcc over 5 years ago
Labels: enhancement

#78 - [Testing] Add tests for AWS-based Cromwells

Issue - State: open - Opened by rexwangcc over 5 years ago
Labels: testing

#77 - [Testing] Add tests for multiple versions of Crowmell

Issue - State: open - Opened by rexwangcc over 5 years ago
Labels: testing

#76 - Roughly implement the /metadata in both API and CLI.

Pull Request - State: closed - Opened by rexwangcc over 5 years ago - 2 comments

#75 - Fix git linguist analysis.

Pull Request - State: closed - Opened by rexwangcc over 5 years ago

#74 - [Discussion] Whether to support storing credentials locally

Issue - State: open - Opened by rexwangcc over 5 years ago - 1 comment
Labels: enhancement

#73 - [Feature Request] Add support for gs path

Issue - State: open - Opened by rexwangcc over 5 years ago
Labels: enhancement

#72 - Fix and improve docs

Pull Request - State: closed - Opened by rexwangcc over 5 years ago

#71 - Fix some issues with the submit command and the CLI arguments.

Pull Request - State: closed - Opened by rexwangcc over 5 years ago

#70 - Add support for JES-backend OAuth-enabled Cromwells

Pull Request - State: closed - Opened by rexwangcc over 5 years ago - 1 comment

#69 - Clean up PR templates

Pull Request - State: closed - Opened by rexwangcc over 5 years ago

#68 - Adding getLogger to cromwell_auth to prevent duplicate logging

Pull Request - State: closed - Opened by kgalens over 5 years ago

#67 - Duplicate logging when using CromwellAuth.from_no_authentication

Issue - State: closed - Opened by kgalens over 5 years ago - 1 comment
Labels: bug

#66 - Format with Black and Flake8

Pull Request - State: closed - Opened by rexwangcc over 5 years ago

#65 - Add linting and drop support for Python 2.x

Pull Request - State: closed - Opened by rexwangcc over 5 years ago

#64 - Add support for service account contents.

Pull Request - State: closed - Opened by rexwangcc over 5 years ago

#62 - There needs to be "retry" around `wait`

Issue - State: open - Opened by rexwangcc over 5 years ago
Labels: enhancement

#61 - Fix a bug that prevents submitting a zipped file as dependency.

Pull Request - State: closed - Opened by rexwangcc almost 6 years ago - 1 comment

#60 - Fix the issues with CLI

Pull Request - State: closed - Opened by rexwangcc almost 6 years ago - 2 comments

#59 - Fix a bug with the /query API

Pull Request - State: closed - Opened by rexwangcc almost 6 years ago

#58 - Add token checker before making the header to avoid token expiration.

Pull Request - State: closed - Opened by rexwangcc almost 6 years ago

#57 - Update the pull-request-template.

Pull Request - State: closed - Opened by rexwangcc almost 6 years ago - 1 comment

#56 - [Feature Request] Add auto-complete for commands and arguments

Issue - State: open - Opened by rexwangcc about 6 years ago
Labels: enhancement

#55 - Fix bugs with CLI and improve the CLI stdout.

Pull Request - State: closed - Opened by rexwangcc about 6 years ago - 1 comment

#54 - Polish authentication and documentation

Pull Request - State: closed - Opened by rexwangcc about 6 years ago

#53 - oauth2client is deprecated

Issue - State: closed - Opened by rexwangcc about 6 years ago
Labels: tech debt

#52 - Change expected name for service-account-key.

Pull Request - State: closed - Opened by danxmoran about 6 years ago

#51 - TypeError: harmonize_credentials() got an unexpected keyword argument 'caas_key'

Issue - State: closed - Opened by multimeric about 6 years ago - 2 comments
Labels: bug

#50 - Add quickstart examples

Pull Request - State: closed - Opened by rexwangcc about 6 years ago - 2 comments

#49 - Improve code structure

Pull Request - State: closed - Opened by rexwangcc about 6 years ago

#48 - plots max usage from shards & removes 'attempts' from task call name

Pull Request - State: closed - Opened by benjamincarlin about 6 years ago

#47 - Fix for #46.

Pull Request - State: closed - Opened by danxmoran about 6 years ago

#46 - Exception when trying to use "submit" command post-refactor

Issue - State: closed - Opened by danxmoran about 6 years ago
Labels: bug

#45 - fixed df bug for getting total disk space

Pull Request - State: closed - Opened by benjamincarlin about 6 years ago

#44 - Fix CLI arguments.

Pull Request - State: closed - Opened by rexwangcc about 6 years ago

#43 - Refactor cromwell tools

Pull Request - State: closed - Opened by samanehsan about 6 years ago - 3 comments

#42 - Bc monitoring scripts 3

Pull Request - State: closed - Opened by benjamincarlin about 6 years ago

#39 - [WIP] Continued effort for refactoring and standardizing the Cromwell-tools API

Pull Request - State: closed - Opened by rexwangcc about 6 years ago - 3 comments

#38 - Add a "validate" command?

Issue - State: closed - Opened by danxmoran about 6 years ago - 3 comments
Labels: enhancement, question

#37 - Add utilities to inject & collect monitoring log info

Issue - State: open - Opened by danxmoran about 6 years ago - 3 comments
Labels: enhancement

#36 - Implement release and query workflows functions.

Pull Request - State: closed - Opened by rexwangcc over 6 years ago - 1 comment

#35 - Make authentication optional?

Issue - State: closed - Opened by CarlosBorroto over 6 years ago - 3 comments
Labels: enhancement

#34 - Add on_hold param to start_workflow

Pull Request - State: closed - Opened by samanehsan over 6 years ago

#33 - Update README.rst

Pull Request - State: closed - Opened by rexwangcc over 6 years ago - 1 comment

#32 - Allow URL in secrets file

Pull Request - State: closed - Opened by ambrosejcarr over 6 years ago

#31 - Ajc refactor

Pull Request - State: closed - Opened by ambrosejcarr over 6 years ago - 13 comments

#30 - [Doc][Retro Item] Cw add autodoc

Pull Request - State: closed - Opened by rexwangcc over 6 years ago - 2 comments

#29 - Test cromwell-tools CLI

Issue - State: closed - Opened by ambrosejcarr over 6 years ago - 1 comment
Labels: testing

#28 - Add Quay autobuild to support testing-in-docker

Issue - State: closed - Opened by ambrosejcarr over 6 years ago - 2 comments
Labels: enhancement

#27 - check for presence of womtool on path

Issue - State: closed - Opened by ambrosejcarr over 6 years ago - 1 comment
Labels: enhancement

#26 - RFC: Drop python 2.7 compatibility

Issue - State: closed - Opened by ambrosejcarr over 6 years ago - 6 comments

#25 - ENH: Allow cromwell url to be saved in secrets file, harmonize naming…

Pull Request - State: closed - Opened by ambrosejcarr over 6 years ago - 1 comment

#24 - Convert unittest classes to pytest for parameterization

Issue - State: open - Opened by ambrosejcarr over 6 years ago - 1 comment
Labels: tech debt

#23 - Better handling of missing parameters

Issue - State: closed - Opened by ambrosejcarr over 6 years ago - 1 comment
Labels: enhancement

#22 - BUG: Allow workflows without labels to be executed with run

Pull Request - State: closed - Opened by ambrosejcarr over 6 years ago

#21 - git-secrets triggers on every commit

Issue - State: closed - Opened by ambrosejcarr over 6 years ago - 1 comment

#20 - Fix the issue with the Dockerfile and remove Ambrose's credit :).

Pull Request - State: closed - Opened by rexwangcc over 6 years ago

#19 - ENH: add validate capability to cromwell-tools

Pull Request - State: closed - Opened by ambrosejcarr over 6 years ago - 6 comments

#18 - Fix a typo/bug in setup.py.

Pull Request - State: closed - Opened by rexwangcc over 6 years ago - 1 comment

#17 - Use offical blessed package to control the version(700)

Pull Request - State: closed - Opened by rexwangcc over 6 years ago - 1 comment

#16 - Freeze libraries in requirements.txt. (639)

Pull Request - State: closed - Opened by rexwangcc over 6 years ago

#15 - Merge Cromwell Manager into Cromwell Tools

Issue - State: closed - Opened by kbergin over 6 years ago - 3 comments
Labels: help wanted, Epic

#14 - Automated tests for cromwell-tools and manager

Issue - State: closed - Opened by kbergin over 6 years ago - 1 comment
Labels: help wanted

#13 - Harden Cromwell Manager

Issue - State: closed - Opened by kbergin over 6 years ago - 1 comment
Labels: help wanted

#12 - Move Cost script to cromwell tools

Issue - State: closed - Opened by kbergin over 6 years ago - 5 comments
Labels: help wanted

#11 - Add retry decorator to start_workflows

Pull Request - State: closed - Opened by samanehsan over 6 years ago

#8 - Add option to use Cromwell-as-a-service

Pull Request - State: closed - Opened by samanehsan almost 7 years ago