Ecosyste.ms: Issues

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

GitHub / galaxyproject/gxformat2 issues and pull requests

#111 - Add myst-parser to docs requirements

Pull Request - State: closed - Opened by nsoranzo 2 months ago - 2 comments

#110 - Fix publishdocs GitHub workflow

Pull Request - State: closed - Opened by nsoranzo 2 months ago

#109 - Fix docs building

Pull Request - State: closed - Opened by nsoranzo 2 months ago

#108 - GalaxyWorkflow: improve parsing speed & codegen

Pull Request - State: closed - Opened by mr-c 2 months ago - 1 comment

#107 - Upgrade schema-salad version and auto-generated documents

Pull Request - State: closed - Opened by mvdbeek 2 months ago - 1 comment

#106 - Fix gxformat2 to .ga conversion if hide: true specified on output

Pull Request - State: closed - Opened by mvdbeek 2 months ago

#105 - Split up workflow input parameter types, add min/max/regex

Pull Request - State: open - Opened by mvdbeek 5 months ago

#104 - Bump tough-cookie from 4.0.0 to 4.1.4 in /typescript

Pull Request - State: open - Opened by dependabot[bot] 6 months ago
Labels: dependencies, javascript

#103 - Bump braces from 3.0.2 to 3.0.3 in /typescript

Pull Request - State: open - Opened by dependabot[bot] 6 months ago
Labels: dependencies, javascript

#102 - Bump json5 from 2.2.1 to 2.2.3 in /typescript

Pull Request - State: open - Opened by dependabot[bot] 6 months ago
Labels: dependencies, javascript

#101 - Bump @babel/traverse from 7.18.0 to 7.25.3 in /typescript

Pull Request - State: open - Opened by dependabot[bot] 6 months ago
Labels: dependencies, javascript

#100 - Arrays of workflow input parameters

Pull Request - State: closed - Opened by mvdbeek 6 months ago - 2 comments

#99 - Sync markdown_parse with Galaxy

Pull Request - State: closed - Opened by mvdbeek 7 months ago

#98 - More helpers for reasoning about gxformat2 steps.

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

#97 - Design goals.

Pull Request - State: closed - Opened by jmchilton 7 months ago - 1 comment
Labels: enhancement, help wanted

#96 - Add abstraction for popping connection dictionary to model.

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

#95 - Use `ConnectedValue` for connected values

Pull Request - State: closed - Opened by mvdbeek 11 months ago - 2 comments

#94 - Add now mandatory readthedocs config files

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

#93 - abstract CWL test: recusively validate

Pull Request - State: open - Opened by mr-c over 1 year ago - 3 comments

#92 - Refresh codegen using schema-salad 8.4.20230808163024

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

#91 - having gxformat2 as a tool in Galaxy

Issue - State: open - Opened by microfuge over 1 year ago - 2 comments

#90 - Update label comment

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

#89 - Fix input conversion if input has no label

Pull Request - State: closed - Opened by mvdbeek almost 2 years ago - 3 comments

#88 - Fix tests

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

#87 - tool_id can be null, passes linter, but crashes Cytoscape

Issue - State: open - Opened by denis-yuen about 2 years ago

#86 - When fixes

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

#85 - Add support for when: source

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

#84 - Support lists as data inputs

Pull Request - State: closed - Opened by mvdbeek over 2 years ago - 1 comment

#83 - Add missing elements to schema, fix change_datatype conversion, CSS

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

#82 - Fix cytoscape HTML exports from dist package.

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

#81 - Bump jackson-databind from 2.10.0.pr1 to 2.12.6.1 in /java

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

#80 - Single output not referencing full output on export

Issue - State: open - Opened by mvdbeek almost 3 years ago

#79 - Add workflow default file support

Pull Request - State: closed - Opened by mvdbeek about 3 years ago - 4 comments

#78 - Generate inheritance diagram

Issue - State: open - Opened by mr-c about 3 years ago

#77 - Enable codecov.io or similar?

Issue - State: open - Opened by mr-c about 3 years ago

#76 - fix schema-salad pycodegen

Pull Request - State: closed - Opened by mr-c about 3 years ago - 1 comment

#75 - Add typescript implementation

Pull Request - State: closed - Opened by mr-c about 3 years ago - 14 comments

#74 - Enable "when" for workflow steps

Pull Request - State: closed - Opened by mr-c about 3 years ago - 7 comments

#73 - Bump snakeyaml from 1.24 to 1.26 in /java

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago
Labels: dependencies

#72 - Run maven tests on pull_request

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

#71 - Run java codegenerator

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

#70 - Lint and deprecation fixes

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

#69 - Fix schema doc build

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

#68 - Maintain collection_type if present

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

#67 - collection type is lost on conversion to gxformat2

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

#66 - Add version field to Format 2

Issue - State: open - Opened by nsoranzo over 3 years ago

#65 - Propagate `doc` field to abstract CWL format

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

#64 - Linting fixes

Pull Request - State: closed - Opened by mvdbeek over 3 years ago - 1 comment

#63 - Bump snakeyaml from 1.24 to 1.26 in /java

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago
Labels: dependencies

#62 - Fix 2 typos

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

#61 - Issue validating format2 workflows

Issue - State: closed - Opened by hexylena over 3 years ago - 7 comments

#60 - Add license and creator to schema

Issue - State: closed - Opened by mvdbeek over 3 years ago - 1 comment

#59 - Rename the default branch to `main`

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

#58 - Relicense under the MIT license

Pull Request - State: closed - Opened by nsoranzo almost 4 years ago - 1 comment

#57 - test_abstract_export: use different names for the different outputs

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

#55 - Misc fixes and refactorings

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

#54 - Convert Format2 workflow `label` to native `name`

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

#53 - Relicense under MIT

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

#52 - Drop support for Python 3.5, add 3.9

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

#51 - CWL export validation not as strict as cwltool's

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

#50 - test_abstract_export: use tmpdir

Pull Request - State: closed - Opened by simleo about 4 years ago - 5 comments

#49 - Update project plumbing to allow dev release.

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

#48 - Add dev ``when`` on steps to backend (don't expose in schema yet).

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

#47 - Bump junit from 4.12 to 4.13.1 in /java

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago
Labels: dependencies

#46 - Produce newly released v1.2 CWL in gxwf-abstract-export.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#45 - More linting - fix int/integer, string/text problem.

Pull Request - State: closed - Opened by jmchilton over 4 years ago - 1 comment

#44 - Document next release.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#43 - Work toward better scripting and more correct cwlabstract export.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#42 - README improvements.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#41 - Fix readme badges.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#40 - Fill out sphinx docs and linting of docs.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#39 - Experiment with mypy.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#38 - Enable CWL abstract export.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#37 - Missing file.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#36 - Update for unpinned schema salad in Planemo.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#35 - Abstraction for normalized outputs.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#34 - Various fixes for newer concepts, abstraction for normalized input access.

Pull Request - State: closed - Opened by jmchilton over 4 years ago - 1 comment

#33 - Rev markdown validator

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#32 - Rework normalizing code and cytoscape functionality for reuse.

Pull Request - State: closed - Opened by jmchilton over 4 years ago

#31 - Error exporting subworkflow

Issue - State: open - Opened by mvdbeek over 4 years ago - 4 comments

#29 - Fix problem with way lint is called from setup.py.

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

#28 - Lint training material workflows.

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

#27 - Implement Cytoscape export for Java.

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

#26 - Finish Cytoscape Export for Java

Issue - State: closed - Opened by jmchilton about 5 years ago - 1 comment

#25 - gxwf-viz -> produce a cytoscape visualization of workflow

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

#23 - Add Markdown validation to workflow linting.

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

#22 - Handle label-less outputs (found in 19.09).

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

#21 - Ready release 0.10.0.

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

#20 - Refine Schema - more docs, add uuid, add tool_state, add input position.

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

#19 - Backward compatibility for a couple attributes.

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

#18 - Bug Fix - Handle outputs without labels.

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

#17 - Add PJA & invocation report to schema, validation, tests.

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

#16 - Github actions with tox.

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

#15 - Add runtime_inputs to the schema, rebuild.

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

#14 - Validation and Linting

Issue - State: open - Opened by jmchilton about 5 years ago

#12 - Iterate Format Toward CWL

Issue - State: open - Opened by jmchilton about 5 years ago