Ecosyste.ms: Issues

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

GitHub / ResearchObject/runcrate issues and pull requests

#82 - convert almost all of setup.cfg to pyproject.toml using ini2toml.

Pull Request - State: closed - Opened by mr-c 3 months ago - 2 comments

#81 - Bump cwl utils in setup.cfg

Pull Request - State: closed - Opened by simleo 3 months ago - 1 comment

#80 - Bump cwl-utils from 0.32 to 0.33

Pull Request - State: closed - Opened by dependabot[bot] 3 months ago - 2 comments
Labels: dependencies, python

#79 - Bump peaceiris/actions-gh-pages from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 3 months ago
Labels: dependencies, github_actions

#78 - Bump networkx from 3.1 to 3.3

Pull Request - State: closed - Opened by dependabot[bot] 3 months ago - 2 comments
Labels: dependencies, python

#77 - Support for ExpressionTool in convert

Issue - State: open - Opened by simleo 3 months ago - 1 comment
Labels: enhancement

#76 - Fix failing conversion if author name is not set

Pull Request - State: closed - Opened by dnlbauer 3 months ago - 3 comments

#75 - Bump codecov/codecov-action from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 5 months ago
Labels: dependencies, github_actions

#74 - Bump actions/setup-python from 4 to 5

Pull Request - State: closed - Opened by dependabot[bot] 7 months ago - 1 comment
Labels: dependencies, github_actions

#73 - Bump cwl-utils from 0.31 to 0.32

Pull Request - State: closed - Opened by dependabot[bot] 7 months ago - 2 comments
Labels: dependencies, python

#72 - Convert SoftwareRequirement

Pull Request - State: closed - Opened by simleo 7 months ago - 1 comment

#71 - Bump cwl-utils from 0.29 to 0.31

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago - 1 comment
Labels: dependencies, python

#70 - Convert encoding format for output files

Pull Request - State: closed - Opened by simleo 8 months ago - 1 comment

#69 - More file metadata

Pull Request - State: closed - Opened by simleo 8 months ago

#68 - Bump cwl-utils from 0.29 to 0.30

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago - 1 comment
Labels: dependencies, python

#67 - upgrade to cwl-utils 0.30

Pull Request - State: closed - Opened by mr-c 8 months ago - 1 comment

#66 - Add ContainerImage

Pull Request - State: closed - Opened by simleo 8 months ago - 4 comments

#65 - Bump networkx from 3.1 to 3.2.1

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago - 2 comments
Labels: dependencies, python

#64 - Bump networkx from 3.1 to 3.2

Pull Request - State: closed - Opened by dependabot[bot] 9 months ago - 2 comments
Labels: dependencies, python

#63 - convert: add whole workflow-run context to the crate

Pull Request - State: closed - Opened by simleo 9 months ago - 1 comment

#62 - Update rocrate requirement from ~=0.8 to ~=0.9

Pull Request - State: closed - Opened by dependabot[bot] 9 months ago - 1 comment
Labels: dependencies, python

#61 - report: do not expect input and output to be lists

Pull Request - State: closed - Opened by simleo 9 months ago - 1 comment

#60 - Set codecov-action back to v3

Pull Request - State: closed - Opened by simleo 9 months ago - 1 comment

#59 - Bump codecov/codecov-action from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago
Labels: dependencies, github_actions

#58 - Bump actions/checkout from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago - 1 comment
Labels: dependencies, github_actions

#57 - Get data paths from manifest

Pull Request - State: closed - Opened by simleo about 1 year ago - 1 comment

#56 - manifest lookup for path

Pull Request - State: closed - Opened by jjkoehorst about 1 year ago - 1 comment

#55 - Basedir for data files

Issue - State: open - Opened by jjkoehorst about 1 year ago - 1 comment

#54 - Data locations using manifest file

Issue - State: closed - Opened by jjkoehorst about 1 year ago - 1 comment

#53 - Error from runcrate convert

Issue - State: open - Opened by HrishiDhondge about 1 year ago - 2 comments

#52 - Support for inline tools

Pull Request - State: closed - Opened by simleo about 1 year ago

#51 - Run: option to download remote inputs

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

#50 - run: don't break if alternateName is same as id

Pull Request - State: closed - Opened by simleo about 1 year ago - 1 comment

#49 - AttributeError: 'CommandLineTool' object has no attribute 'rsplit'

Issue - State: closed - Opened by jjkoehorst about 1 year ago - 1 comment

#48 - Run module: fix check_runnable

Pull Request - State: closed - Opened by simleo about 1 year ago

#47 - Update rocrate requirement from ~=0.7 to ~=0.8

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

#46 - Option to remap data entity names

Pull Request - State: open - Opened by simleo about 1 year ago - 7 comments

#45 - Fix crash related to skipped subworkflows

Pull Request - State: closed - Opened by simleo about 1 year ago - 1 comment

#44 - Bump networkx from 2.8 to 3.1

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

#43 - Handle outputs with multiple output sources

Pull Request - State: closed - Opened by simleo about 1 year ago - 1 comment

#42 - Filenames not in ro-crate-metadata.json

Issue - State: closed - Opened by jjkoehorst about 1 year ago - 4 comments

#41 - KeyError: 'fastqc.cwl' while cwl file is in the provenance folder

Issue - State: closed - Opened by jjkoehorst about 1 year ago - 4 comments

#40 - Unpin & upgrade cwl-utils version

Pull Request - State: closed - Opened by mr-c about 1 year ago - 7 comments

#39 - schema_salad.exceptions.ValidationException tried...

Issue - State: closed - Opened by jjkoehorst about 1 year ago - 1 comment

#38 - Handle step input mappings with no source

Pull Request - State: closed - Opened by simleo about 1 year ago

#37 - Fix convert_cwl_type

Pull Request - State: closed - Opened by simleo about 1 year ago - 1 comment

#36 - Bug in cwltool results in packed.cwl but no individual cwl files

Issue - State: closed - Opened by jjkoehorst about 1 year ago - 2 comments

#35 - Bag validation failed: data/.DS_Store exists on filesystem but is not in the manifest

Issue - State: closed - Opened by jjkoehorst about 1 year ago - 1 comment
Labels: invalid

#34 - Option to make data files more user friendly

Issue - State: open - Opened by jjkoehorst about 1 year ago - 2 comments

#33 - AttributeError: 'NoneType' object has no attribute 'rsplit'

Issue - State: closed - Opened by jjkoehorst about 1 year ago - 6 comments

#31 - Handle multi source step inputs

Pull Request - State: closed - Opened by simleo about 1 year ago - 1 comment

#30 - Convert CWLProv to RO - TypeError: unhashable type: 'list'

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

#29 - Convert cwl label, doc and intent

Pull Request - State: closed - Opened by simleo about 1 year ago

#28 - Add memoryRequirements to tools

Pull Request - State: closed - Opened by simleo about 1 year ago - 1 comment

#27 - run: Support list of files/dirs in PropertyValue

Pull Request - State: closed - Opened by simleo about 1 year ago - 1 comment

#26 - Handle distinct directories with same content

Issue - State: open - Opened by simleo about 1 year ago
Labels: enhancement

#25 - convert: add input object document

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

#24 - Run module

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

#23 - Fix context extra terms

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

#22 - Set param names to those expected by CWL

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

#21 - runcrate report: dump all actions

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

#20 - Convert module

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

#19 - Enhancements for report

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

#18 - Move tools/consume_crate functionality to runcrate CLI

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

#17 - WIP: ShEx validation method

Pull Request - State: open - Opened by stain over 1 year ago - 1 comment

#16 - Fix exampleOfWork duplicates

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

#15 - convert: add more metadata

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

#14 - CWLProv conversion: add profile conformance

Issue - State: closed - Opened by simleo over 1 year ago - 1 comment

#12 - Error from runcrate-analysis, scenario 4_a

Issue - State: closed - Opened by simleo over 1 year ago - 1 comment

#11 - Error from runcrate-analysis, scenario 2_a

Issue - State: closed - Opened by simleo over 1 year ago - 1 comment

#10 - CWLProv conversion: include doc, label, intent

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

#9 - CWLProv conversion: include primary-job.json

Issue - State: closed - Opened by simleo over 1 year ago - 1 comment

#8 - CWLProv conversion: convert basename

Issue - State: closed - Opened by simleo over 1 year ago - 1 comment

#7 - Fix handling of default file or dir in params

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

#6 - Support for nested I/O directories

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

#5 - Support for secondary files

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

#4 - Add CLI

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

#3 - Clean up the Tox configuration

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

#2 - Docs setup

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

#1 - Handle "cwlprov:None" parameters

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