Ecosyste.ms: Issues

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

GitHub / LUMC/pytest-workflow issues and pull requests

#197 - Fix unbound local variable error

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

#195 - Feature request: Only run assertions (--skip-command?)

Issue - State: closed - Opened by stianlagstad about 2 months ago - 2 comments

#194 - add metadata field for custom tests

Pull Request - State: open - Opened by sstrong99 3 months ago - 12 comments

#193 - Add a pytest-workflow generate command line function

Issue - State: open - Opened by rhpvorderman 4 months ago - 3 comments

#192 - Release 2.1.0

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

#191 - Release 2.1.0

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

#190 - Add 3.12 python support, drop 3.7 support

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

#189 - Make pytest_collect_file() compatible with pytest 8.1+

Pull Request - State: closed - Opened by JAlvarezJarreta 4 months ago - 5 comments

#188 - Feature request: Allow wildcard in path

Issue - State: closed - Opened by stianlagstad 7 months ago - 3 comments

#187 - how to customize steps before each workflow test

Issue - State: open - Opened by anoronh4 10 months ago - 11 comments

#186 - is it possible to run pytest and only run non-pytest-workflow tests

Issue - State: closed - Opened by sstrong99 10 months ago - 3 comments

#185 - option to disable copying of project directory

Issue - State: closed - Opened by ahvigil 11 months ago - 1 comment

#184 - Add hook for custom tests in test yaml

Issue - State: open - Opened by sstrong99 11 months ago - 5 comments

#183 - example implementation for fail_if_unknown

Pull Request - State: closed - Opened by sstrong99 11 months ago - 1 comment

#182 - feature request: fail if any unknown files exist

Issue - State: open - Opened by sstrong99 11 months ago - 9 comments

#181 - collected items

Issue - State: closed - Opened by lihaicheng7003 11 months ago - 2 comments

#180 - allow wildcard matching for file paths

Issue - State: closed - Opened by sstrong99 11 months ago - 2 comments

#178 - Use xopen throughout the code

Issue - State: open - Opened by rhpvorderman about 1 year ago

#177 - Add extract_md5sum check

Pull Request - State: closed - Opened by wholtz about 1 year ago - 3 comments

#176 - Optionally Re-run the tests but not the workflow to help develop tests

Issue - State: open - Opened by yfarjoun about 1 year ago - 5 comments
Labels: Accepted feature

#175 - add file diffing

Pull Request - State: closed - Opened by ahvigil about 1 year ago - 6 comments

#174 - Rerun last failed workflows in same tmp directory?

Issue - State: open - Opened by glormph over 1 year ago - 6 comments

#173 - bioconda package is outdated

Issue - State: closed - Opened by stevekm over 1 year ago - 2 comments

#172 - Document test discovery naming conventions

Pull Request - State: closed - Opened by wholtz over 1 year ago - 2 comments

#171 - Release 2.0.1

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

#170 - Release 2.0.1

Issue - State: closed - Opened by rhpvorderman over 1 year ago

#169 - Functional tests for nextflow

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

#167 - In rare cases, pytest-workflow crashes on log files with special characters

Issue - State: closed - Opened by Redmar-van-den-Berg over 1 year ago - 2 comments
Labels: bug

#166 - Release 2.0.0

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

#165 - Release 2.0.0

Issue - State: closed - Opened by rhpvorderman over 1 year ago

#162 - Collecting tests fails due to git submodules and symlinks

Issue - State: closed - Opened by wholtz over 1 year ago - 3 comments

#161 - File encodings can not be defined when opening files for content tests

Issue - State: closed - Opened by fabianegli over 1 year ago - 5 comments

#160 - Files are read twice even if no patterns are given

Issue - State: closed - Opened by fabianegli over 1 year ago - 2 comments

#159 - How to run pytest-workflow from Python?

Issue - State: open - Opened by stevekm over 1 year ago - 4 comments

#158 - Workflow testing at scale using SLURM

Issue - State: closed - Opened by wholtz over 1 year ago - 3 comments

#157 - Drop python 3.6 support

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

#156 - docs: pytest flags -k and -m are not supported

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

#155 - Selecting a subset of tests to run

Issue - State: closed - Opened by wholtz over 1 year ago - 4 comments

#154 - Skipping when exit code has failed for workflow custom tests.

Issue - State: open - Opened by rhpvorderman over 1 year ago - 1 comment
Labels: Accepted feature

#153 - Exitcode skips

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

#152 - Skip content tests when file does not exist.

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

#151 - Add a check if all submodules are present and cloned.

Pull Request - State: closed - Opened by rhpvorderman over 1 year ago - 2 comments

#150 - Remove underscore imports

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

#149 - Enable tests on python 3.11

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

#148 - Use of Google Cloud Storage outside GCE

Issue - State: closed - Opened by lmtani over 1 year ago - 2 comments

#147 - Add examples for testing Bash scripts

Pull Request - State: closed - Opened by Redmar-van-den-Berg over 1 year ago - 1 comment

#146 - Standerderror exitcode

Pull Request - State: closed - Opened by lucasvanb over 1 year ago - 2 comments

#145 - Document using pytest.ini

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

#144 - Nextflow test documentation2

Pull Request - State: closed - Opened by lucasvanb over 1 year ago - 4 comments

#143 - Nextflow test

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

#142 - platform-specific settings

Issue - State: closed - Opened by seanrjohnson almost 2 years ago - 4 comments

#141 - custom skip/include lists

Issue - State: open - Opened by seanrjohnson almost 2 years ago - 3 comments

#140 - Add language examples to the documentation

Issue - State: closed - Opened by Redmar-van-den-Berg about 2 years ago - 3 comments
Labels: Documentation

#139 - pytest-workflow crashes when git submodules are missing

Issue - State: closed - Opened by Redmar-van-den-Berg about 2 years ago - 1 comment
Labels: enhancement

#138 - Document the use of environment variables with pytest-workflow

Pull Request - State: closed - Opened by rhpvorderman about 2 years ago

#137 - Enormous walll of text when a worklow fails is unhelpful.

Issue - State: closed - Opened by rhpvorderman about 2 years ago - 3 comments
Labels: enhancement

#136 - Document pytest ini

Issue - State: closed - Opened by rhpvorderman about 2 years ago
Labels: Documentation

#135 - Stdout and stderr should be displayed on command failure.

Issue - State: closed - Opened by rhpvorderman about 2 years ago - 1 comment
Labels: enhancement

#134 - Avoid capturing stdout and stderr

Issue - State: closed - Opened by pkerpedjiev about 2 years ago - 7 comments

#133 - allow passing through host env vars to executing commands

Pull Request - State: closed - Opened by jchorl over 2 years ago - 3 comments

#132 - Use of environment variables should be clarified in the documentation

Issue - State: closed - Opened by awgymer over 2 years ago - 9 comments

#131 - Fix deprecation warnings from pytest 7.0.0

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

#130 - Throw an error when files checked in in git are not found.

Pull Request - State: closed - Opened by rhpvorderman over 2 years ago

#129 - pytest-workflow crashes when files in git are removed

Issue - State: closed - Opened by Redmar-van-den-Berg over 2 years ago - 2 comments

#128 - Release 1.6.0

Pull Request - State: closed - Opened by rhpvorderman over 2 years ago

#127 - Release 1.6.0

Issue - State: closed - Opened by rhpvorderman over 2 years ago

#126 - Make pytest-workflow git-aware

Pull Request - State: closed - Opened by rhpvorderman over 2 years ago - 4 comments

#125 - Difficulty using with Nextflow due to the `work` folder.

Issue - State: closed - Opened by jrm5100 over 2 years ago - 5 comments

#124 - Add python 3.10 support

Pull Request - State: closed - Opened by rhpvorderman over 2 years ago

#123 - Better fitting description

Pull Request - State: closed - Opened by rhpvorderman over 3 years ago

#122 - Latest version does not work due to pytest deprecation

Issue - State: closed - Opened by Redmar-van-den-Berg over 3 years ago - 1 comment

#121 - Release 1.5.0

Pull Request - State: closed - Opened by rhpvorderman over 3 years ago

#120 - Release 1.5.0

Issue - State: closed - Opened by rhpvorderman over 3 years ago

#119 - Switch to github CI. Test on 3.9 explicitly.

Pull Request - State: closed - Opened by rhpvorderman over 3 years ago

#118 - Update output format

Pull Request - State: closed - Opened by Redmar-van-den-Berg over 3 years ago - 2 comments

#117 - Make tests work with pytest > 6. Move md5sum to utils.

Pull Request - State: closed - Opened by rhpvorderman almost 4 years ago

#116 - Use newest version of cromwell in testing.

Pull Request - State: closed - Opened by rhpvorderman almost 4 years ago

#115 - Invocation

Pull Request - State: closed - Opened by OvalAdmin almost 4 years ago - 2 comments

#113 - Working Directory: Windows Permissions

Issue - State: open - Opened by OvalAdmin about 4 years ago - 6 comments

#112 - Current Directory

Issue - State: closed - Opened by OvalAdmin about 4 years ago - 4 comments

#111 - Improve code readability by making better use of pathlib.

Pull Request - State: closed - Opened by rhpvorderman about 4 years ago

#110 - Release 1.4.0

Pull Request - State: closed - Opened by rhpvorderman about 4 years ago

#109 - Release 1.4.0

Issue - State: closed - Opened by rhpvorderman about 4 years ago

#108 - Deprecate use of name in workflow marks

Pull Request - State: closed - Opened by rhpvorderman about 4 years ago

#107 - Add regex evaluation to the test possibilities.

Pull Request - State: closed - Opened by Redmar-van-den-Berg about 4 years ago - 1 comment

#106 - Add `contains_regex` and `must_not_contain_regex` keys to test arsenal.

Issue - State: closed - Opened by rhpvorderman about 4 years ago
Labels: enhancement

#105 - Release 1.3.0

Pull Request - State: closed - Opened by rhpvorderman about 4 years ago

#104 - Release 1.3.0

Issue - State: closed - Opened by rhpvorderman about 4 years ago

#103 - Make sure custom tests can run on multiple workflows.

Pull Request - State: closed - Opened by rhpvorderman about 4 years ago - 1 comment

#102 - Documentation fixes

Pull Request - State: closed - Opened by rhpvorderman about 4 years ago

#101 - Add a strategy that saves disk space by using soft links.

Pull Request - State: closed - Opened by rhpvorderman about 4 years ago

#100 - Refactor pytest-workflow using python 3.6 tools.

Pull Request - State: closed - Opened by rhpvorderman about 4 years ago

#99 - Fix deprecation warnings

Pull Request - State: closed - Opened by rhpvorderman about 4 years ago