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refresh from 1.2.1-proposed #14

Merged
merged 74 commits into from
May 16, 2024
Merged

refresh from 1.2.1-proposed #14

merged 74 commits into from
May 16, 2024

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mr-c
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@mr-c mr-c commented Jun 30, 2023

  • Backport formatting fixes (#210)
  • fix typo in ResourceRequirement.coresMin description (#214)
  • fix workflow scatter typos (#215)
  • Two tests were accidently still specifying v1.0 (#217)
  • Add missing label field
  • backport labels for some conditional tests
  • Increase the timeout in the time limit test
  • Create dependabot.yml
  • Added conformance tests for File and Directory glob
  • add hyperlinks to intent definition
  • Bump rojopolis/spellcheck-github-actions from 0.23.0 to 0.29.0
  • Bump actions/setup-python from 2 to 4
  • Bump actions/checkout from 2 to 3
  • ci: use cwltest pytest plugin for better speed
  • Bump rojopolis/spellcheck-github-actions from 0.29.0 to 0.30.0
  • Fixed MacOS X compatibility for wc-tool
  • Document that ExpressionTool outputs are always valid
  • add render script
  • install cwltool when rendering
  • also lockfile
  • render: skip docker
  • render: re-use git checkout
  • official IANA media types for CWL documents
  • spelling: check YAML docs
  • Fixes #193
  • Substitute URI with IRI in docs
  • Add tests for decimal representation of very big and very small numbers
  • ci: add codespell check
  • sync metaschema
  • typos
  • Fix typo {} vs ()
  • Bump rojopolis/spellcheck-github-actions from 0.30.0 to 0.32.0
  • Bump codespell-project/actions-codespell from 1.0 to 2.0
  • Update requirements.txt
  • Update requirements.txt
  • All loadContents tests are required
  • default_with_falsey_value (Add support for markdown report #48)
  • Bump rojopolis/spellcheck-github-actions from 0.32.0 to 0.33.0 (#257)

mr-c and others added 30 commits November 9, 2022 17:09
@mr-c @fmigneault
Backport formatting fixes (#210)
31ec48a 
* add missing newlines in code samples (#207)

* fix over-indented list interpreted as code + typo (#208)

Co-authored-by: Francis Charette-Migneault <[email protected]>
@fmigneault
fix typo in ResourceRequirement.coresMin description (#214)
e4bb3bf
@fmigneault
fix workflow scatter typos (#215)
ad6f77c
@mr-c
Two tests were accidently still specifying v1.0 (#217)
f6172e5
@tom-tan @mr-c
Add missing label field
ee06bc0
@mr-c
backport labels for some conditional tests
a507314 
Originally in 60523c2
@tetron @mr-c
Increase the timeout in the time limit test
f79146f 
When using singularity on a FUSE mount, the container startup time can
exceed a 3 second timeout resulting in incorrect results.  This
PR increases the timeout in the test to 8 seconds.
@mr-c
Create dependabot.yml
bcf1d89
@GlassOfWhiskey @mr-c
Added conformance tests for File and Directory glob
fd53d9d 
Check that an error is thrown if `File` and `Directory` types are not
correctly specified.
@mr-c
add hyperlinks to intent definition
83c7208
@dependabot @mr-c
Bump rojopolis/spellcheck-github-actions from 0.23.0 to 0.29.0
020e70d 
Bumps [rojopolis/spellcheck-github-actions](https://github.com/rojopolis/spellcheck-github-actions) from 0.23.0 to 0.29.0.
- [Release notes](https://github.com/rojopolis/spellcheck-github-actions/releases)
- [Changelog](https://github.com/rojopolis/spellcheck-github-actions/blob/master/CHANGELOG.md)
- [Commits](rojopolis/spellcheck-github-actions@0.23.0...0.29.0)

---
updated-dependencies:
- dependency-name: rojopolis/spellcheck-github-actions
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <[email protected]>
@dependabot @mr-c
Bump actions/setup-python from 2 to 4
c15357a 
Bumps [actions/setup-python](https://github.com/actions/setup-python) from 2 to 4.
- [Release notes](https://github.com/actions/setup-python/releases)
- [Commits](actions/setup-python@v2...v4)

---
updated-dependencies:
- dependency-name: actions/setup-python
  dependency-type: direct:production
  update-type: version-update:semver-major
...

Signed-off-by: dependabot[bot] <[email protected]>
@dependabot @mr-c
Bump actions/checkout from 2 to 3
d1c2e2c 
Bumps [actions/checkout](https://github.com/actions/checkout) from 2 to 3.
- [Release notes](https://github.com/actions/checkout/releases)
- [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md)
- [Commits](actions/checkout@v2...v3)

---
updated-dependencies:
- dependency-name: actions/checkout
  dependency-type: direct:production
  update-type: version-update:semver-major
...

Signed-off-by: dependabot[bot] <[email protected]>
@mr-c
ci: use cwltest pytest plugin for better speed
7052da7
@dependabot @mr-c
Bump rojopolis/spellcheck-github-actions from 0.29.0 to 0.30.0
bd5d12f 
Bumps [rojopolis/spellcheck-github-actions](https://github.com/rojopolis/spellcheck-github-actions) from 0.29.0 to 0.30.0.
- [Release notes](https://github.com/rojopolis/spellcheck-github-actions/releases)
- [Changelog](https://github.com/rojopolis/spellcheck-github-actions/blob/master/CHANGELOG.md)
- [Commits](rojopolis/spellcheck-github-actions@0.29.0...0.30.0)

---
updated-dependencies:
- dependency-name: rojopolis/spellcheck-github-actions
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <[email protected]>
@GlassOfWhiskey @mr-c
Fixed MacOS X compatibility for wc-tool
5411b8c
@GlassOfWhiskey @mr-c
Document that ExpressionTool outputs are always valid
e136888 
Up to CWL v1.2, type-checking never occurs for ExpressionTool output
objects in the reference implementation. Therefore, it must be
explicitly stated in the specification. The goal is then to fix this
behaviour in CWL >= v1.3.
@mr-c
add render script
192bb32
@mr-c
Merge remote-tracking branch 'origin/main' into 1.2.1_proposed
e750ef2
@mr-c
install cwltool when rendering
2bb40f5
@mr-c
also lockfile
a75fbcb
@mr-c
render: skip docker
e8508f8
@mr-c
render: re-use git checkout
c928c98
@mr-c
official IANA media types for CWL documents
92d0acd 
Fixes: #232
@mr-c
spelling: check YAML docs
37a44af
@GlassOfWhiskey @mr-c
Fixes #193
979accf
@GlassOfWhiskey @mr-c
Substitute URI with IRI in docs
63d4784
@mr-c
Add tests for decimal representation of very big and very small numbers
4f9b346 
Closes: #240
@mr-c
ci: add codespell check
cbbf982
@mr-c
sync metaschema
3d01afe
mr-c and others added 19 commits August 21, 2023 17:17
@mr-c
remove last references to Python 2
5f84b9a
@mr-c
add explicit docker repository where missing
df6fd28 
As per CONFORMANCE_TESTS.md guidelines
@mr-c
test for parameter references in CommandLineTool.arguments
01f2ee6 
Fixes: common-workflow-language/common-workflow-language#706
@mr-c
gh-actions: split out JSON schema validation
63d914b
@mr-c
update the changelogs through 01f2ee6.
c6c9be6
@fmigneault @mr-c
add missing Any? and Any[]? CWL types to JSON schema
1aa4a87
@fmigneault @mr-c
add missing ruamel.yaml package for JSON schema tests
c0cc7bb
@mr-c
tests: conditionals: add 2 missing doc strings
a4e0aa4
@mr-c
record_order_with_input_bindings had wrong tag
5f4a24c
@dependabot @mr-c
Bump actions/checkout from 3 to 4
31bda22 
Bumps [actions/checkout](https://github.com/actions/checkout) from 3 to 4.
- [Release notes](https://github.com/actions/checkout/releases)
- [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md)
- [Commits](actions/checkout@v3...v4)

---
updated-dependencies:
- dependency-name: actions/checkout
  dependency-type: direct:production
  update-type: version-update:semver-major
...

Signed-off-by: dependabot[bot] <[email protected]>
@dependabot @mr-c
Bump rojopolis/spellcheck-github-actions from 0.33.1 to 0.34.0
cf52780 
Bumps [rojopolis/spellcheck-github-actions](https://github.com/rojopolis/spellcheck-github-actions) from 0.33.1 to 0.34.0.
- [Release notes](https://github.com/rojopolis/spellcheck-github-actions/releases)
- [Changelog](https://github.com/rojopolis/spellcheck-github-actions/blob/master/CHANGELOG.md)
- [Commits](rojopolis/spellcheck-github-actions@0.33.1...0.34.0)

---
updated-dependencies:
- dependency-name: rojopolis/spellcheck-github-actions
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <[email protected]>
@mr-c @tetron
address review comments
bd9e228 
Co-authored-by: Peter Amstutz <[email protected]>
@mr-c
spelling fix
28803b0
@mr-c
json tests: adapt to newer ruamel.yaml
0d538a0
@dependabot @mr-c
Bump rojopolis/spellcheck-github-actions from 0.34.0 to 0.35.0
1606e54 
Bumps [rojopolis/spellcheck-github-actions](https://github.com/rojopolis/spellcheck-github-actions) from 0.34.0 to 0.35.0.
- [Release notes](https://github.com/rojopolis/spellcheck-github-actions/releases)
- [Changelog](https://github.com/rojopolis/spellcheck-github-actions/blob/master/CHANGELOG.md)
- [Commits](rojopolis/spellcheck-github-actions@0.34.0...0.35.0)

---
updated-dependencies:
- dependency-name: rojopolis/spellcheck-github-actions
  dependency-type: direct:production
  update-type: version-update:semver-minor
...

Signed-off-by: dependabot[bot] <[email protected]>
@dependabot @mr-c
Bump actions/setup-python from 4 to 5
504ccbe 
Bumps [actions/setup-python](https://github.com/actions/setup-python) from 4 to 5.
- [Release notes](https://github.com/actions/setup-python/releases)
- [Commits](actions/setup-python@v4...v5)

---
updated-dependencies:
- dependency-name: actions/setup-python
  dependency-type: direct:production
  update-type: version-update:semver-major
...

Signed-off-by: dependabot[bot] <[email protected]>
@mr-c
Merge pull request #115 from common-workflow-language/1.2.1_proposed
ae6899d 
1.2.1 has been approved by the following members of the CWL Leadership Team: 
- Michael R. Crusoe
- Peter Amstutz
- Stian Soiland-Reyes
- Jeff Gentry
@mr-c @tetron
start development of CWL v1.3.0-dev1
0e11c1f
@GlassOfWhiskey @tetron
Bump test version to v1.3.0-dev1
277b56d 
This commit bumps the `cwlVersion` field of all the conformance tests to
v1.3.0-dev1, with the exception of the `mixed-versions` ones.
@tetron tetron force-pushed the refresh_from_1.2.1-proposed branch from 54214e0 to c41f5e3 Compare May 16, 2024 11:27
mr-c and others added 3 commits May 16, 2024 07:31
@mr-c @tetron
update the mixed-versions tests for v1.3.0-dev1
b9f1506
@GlassOfWhiskey @tetron
Sink type refactoring
f14aa30 
This commit is motivated by the fact that the `linkMerge` and `pickValue`
fields were repeated in the `Sink` and `WorkflowOutputParameter` types.

To remove this repetition, these two fields have been isolated in a new
type called `Sink`. The previous `Sink` type, which is now named `InputSink`
extends `Sink` with the `source` field, while a new `OutputSink` type extends
`Sink` with the `outputSource` field.

The `WorkflowInputParameter` type extends the `InputSink`, while the
`WorkflowOutputParameter` type inherits from `OutputSink`. Note that
this separation will be useful also for future extensions. For example,
the proposed `loop` feature will build upon the `OutputSink` type to map
the step outputs into the inputs of the next iteration.
@tetron
Merge branch 'main' into refresh_from_1.2.1-proposed
4cf7e7a
@tetron tetron force-pushed the refresh_from_1.2.1-proposed branch from c41f5e3 to 4cf7e7a Compare May 16, 2024 11:36
@mr-c mr-c merged commit 21f93fa into main May 16, 2024
5 checks passed
@mr-c mr-c deleted the refresh_from_1.2.1-proposed branch May 17, 2024 10:49
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6 participants
@mr-c @fmigneault @tom-tan @tetron @GlassOfWhiskey @jdidion