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Bump synapseclient from 2.5.1 to 4.0.0 in /conda/sage-bionetworks #11

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Bump synapseclient from 2.5.1 to 4.0.0 in /conda/sage-bionetworks #11

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@dependabot dependabot bot commented on behalf of github Feb 1, 2024

Bumps synapseclient from 2.5.1 to 4.0.0.

Release notes

Sourced from synapseclient's releases.

v4.0.0

Highlights

  • Only authentication through Personal Access Token (aka: Authentication bearer token) is supported. Review the Authentication document for information on setting up your usage of a Personal Access Token to authenticate with Synapse.
  • Date type Annotations on Synapse entities are now timezone aware. Review our reference documentation for Annotations. The pytz package is reccomended if you regularly work with data across time zones.
    • If you do not set the tzinfo field on a date or datetime instance we will use the timezone of the machine where the code is executing.
    • If you are using the Manifest TSV for bulk actions on your projects you'll now see that [synapseutils.sync.syncFromSynapse][] will store dates as YYYY-MM-DDTHH:MM:SSZ. Review our documentation for an example manifest file. Additionally, if you'd like to upload an annotation in a specific timezone please make sure that it is in ISO 8601 format. If you do not specify a timezone it is assumed to use the timezone of the machine where the code is executing.
  • Support for annotations with multiple values through the Manifest TSV with the usage of a comma delimited bracket wrapped list. Any manifest files wishing to take advantage of multi-value annotations need to match this format. Examples:
    • ["Annotation, with a comma", another annotation]
    • [1,2,3]
    • [2023-12-04T07:00:00Z,2000-01-01T07:00:00Z]
  • Migration and expansion of the docs site! You'll see that the look, feel, and flow of all of the information on this site has been touched. As we move forward we hope that you'll provide the Data Processing and Engineering team feedback on areas we can improve.
  • Expansion of the available Python Tutorials can be found starting here.

What's Changed

New Contributors

Full Changelog: Sage-Bionetworks/synapsePythonClient@v3.2.0...v4.0.0-rc

v3.2.0

What's Changed

... (truncated)

Changelog

Sourced from synapseclient's changelog.

4.0.0 (2024-01-12)

Highlights

  • Only authentication through Personal Access Token (aka: Authentication bearer token) is supported. Review the Authentication document for information on setting up your usage of a Personal Access Token to authenticate with Synapse.
  • Date type Annotations on Synapse entities are now timezone aware. Review our reference documentation for Annotations. The pytz package is reccomended if you regularly work with data across time zones.
    • If you do not set the tzinfo field on a date or datetime instance we will use the timezone of the machine where the code is executing.
    • If you are using the Manifest TSV for bulk actions on your projects you'll now see that [synapseutils.sync.syncFromSynapse][] will store dates as YYYY-MM-DDTHH:MM:SSZ. Review our documentation for an example manifest file. Additionally, if you'd like to upload an annotation in a specific timezone please make sure that it is in ISO 8601 format. If you do not specify a timezone it is assumed to use the timezone of the machine where the code is executing.
  • Support for annotations with multiple values through the Manifest TSV with the usage of a comma delimited bracket wrapped list. Any manifest files wishing to take advantage of multi-value annotations need to match this format. Examples:
    • ["Annotation, with a comma", another annotation]
    • [1,2,3]
    • [2023-12-04T07:00:00Z,2000-01-01T07:00:00Z]
  • Migration and expansion of the docs site! You'll see that the look, feel, and flow of all of the information on this site has been touched. As we move forward we hope that you'll provide the Data Processing and Engineering team feedback on areas we can improve.
  • Expansion of the available Python Tutorials can be found starting here.

Bug Fixes

  • [SYNPY-1357] - Manifest does not support annotations with multiple values
  • [SYNPY-1358] - Date and datetime annotations do not account for timezone
  • [SYNPY-1387] - Update High level best practices for project structure document

Stories

  • [SYNPY-955] - Remove the ability to login using session token
  • [SYNPY-1182] - Remove ability to manage API keys and to use API keys for auth' in R/Py/CLI
  • [SYNPY-1225] - Remove the use of all authentication methods except authToken in the python client for security
  • [SYNPY-1302] - Deprecate getPermissions and create get_permissions
  • [SYNPY-1321] - Benchmark download speeds

... (truncated)

Commits
  • c097f24 Merge branch 'develop' into v4.0.0-rc-dev
  • 1fe7003 Move permissions from models folder (#1046)
  • 289698a Merge branch 'develop' into v4.0.0-rc-dev
  • 66a4b30 [SYNPY-1357] Correction to strip spaces before and after values (#1045)
  • b6cd4cd Version v4.0.0 docs
  • 018d3eb Remove keyring information as it is not used
  • fc96fd9 [SYNPY-1357] Allow multiple values in manifest TSV (#1030)
  • 93b3f89 Correct release notes link
  • b5a0220 Merge pull request #1044 from Sage-Bionetworks/SYNPY-1387-best_practices_doc
  • 87c6462 Update docs/explanations/structuring_your_project.md
  • Additional commits viewable in compare view

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@dependabot
Bump synapseclient from 2.5.1 to 4.0.0 in /conda/sage-bionetworks
1e290c9 
Bumps [synapseclient](https://github.com/Sage-Bionetworks/synapsePythonClient) from 2.5.1 to 4.0.0.
- [Release notes](https://github.com/Sage-Bionetworks/synapsePythonClient/releases)
- [Changelog](https://github.com/Sage-Bionetworks/synapsePythonClient/blob/develop/docs/news.md)
- [Commits](Sage-Bionetworks/synapsePythonClient@v2.5.1...v4.0.0)

---
updated-dependencies:
- dependency-name: synapseclient
  dependency-type: direct:production
  update-type: version-update:semver-major
...

Signed-off-by: dependabot[bot] <[email protected]>
@dependabot dependabot bot added dependencies Pull requests that update a dependency file python Pull requests that update Python code labels Feb 1, 2024
@dependabot dependabot bot mentioned this pull request Feb 1, 2024
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dependabot bot commented on behalf of github Mar 1, 2024

Superseded by #14.

@dependabot dependabot bot closed this Mar 1, 2024
@dependabot dependabot bot deleted the dependabot/pip/conda/sage-bionetworks/main/synapseclient-4.0.0 branch March 1, 2024 15:50
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