Bump synapseclient from 2.5.1 to 2.7.1 in /conda/sage-bionetworks

[dependabot]

Bumps synapseclient from 2.5.1 to 2.7.1.

Release notes

Sourced from synapseclient's releases.

v2.7.1

What's Changed

• Mint patch release: Lock down pandas version since pandas >1.5 doesn't work by @​thomasyu888 in Sage-Bionetworks/synapsePythonClient#955
• [SYNPY-1257] Hotfix - upgrade github actions by @​thomasyu888 in Sage-Bionetworks/synapsePythonClient#956

Full Changelog: Sage-Bionetworks/synapsePythonClient@v2.7.0...v2.7.1

v2.7.0

Bug Fixes

• [SYNPY-226] - isConsistent fails as parameter for table query
• [SYNPY-562] - Make sure SQL functions, including "year", are quoted correctly
• [SYNPY-1031] - File version increments with 400 client error
• [SYNPY-1219] - Update Entity class to be compatible with the new Dataset entity
• [SYNPY-1224] - Correct SynapseUnmetAccessRestrictions message
• [SYNPY-1237] - as_table_columns function is mishandling mixed data types

Stories

• [SYNPY-63] - py: use metaclass to replace the _entity_type_to_class hack
• [SYNPY-992] - synapseutils changeFileMetadata missing syn parameter docstring
• [SYNPY-1175] - Programmatic Support for Download V2 via Py Client
• [SYNPY-1193] - Support Datasets functionality
• [SYNPY-1221] - Set up gh-action: black, the python auto formatter on the python client

Sub-Tasks

• [SYNPY-1207] - Support syn.get() on a dataset

Tasks

• [SYNPY-566] - Clarify expected list format for sync manifest
• [SYNPY-1053] - Increase documentation of forceVersion in syncToSynapse
• [SYNPY-1145] - Link to manifest format in CLI sync command usage help
• [SYNPY-1226] - Leverage ViewBase for Datasets instead of SchemaBase
• [SYNPY-1235] - Create codeql scanning workflow

Contributors

• @​danlu1
• @​thomasyu888
• @​allaway
• @​vpchung

New Contributors

• @​vpchung made their first contribution in Sage-Bionetworks/synapsePythonClient#914

Full Changelog: Sage-Bionetworks/synapsePythonClient@v2.6.0...v2.7.0

... (truncated)

Changelog

Sourced from synapseclient's changelog.

2.7.1 (2023-04-11)

Highlights

• Locked down pandas version to only support pandas < 1.5
• Next major release (3.0.0)...
  • Support only pandas >= 1.5
  • Remove support for Python 3.7 due to its end of life.
  • Remove support for login via passwords for best security practices.
  • There will be major cosmetic changes to the cli such as removing all camel case or non-standard single dash long command line interface (cli) parameters. Example: command line arguments like -parent will become --parent. Commands that support camel case like --parentId will be changed to --parent-id.

2.7.0 (2022-09-16)

Highlights

• Added support for Datasets

  .. code-block:: python

    # from python
    import synapseclient
    import synapseutils
    syn = synapseclient.login()
    dataset_items = [
        {'entityId': "syn000", 'versionNumber': 1},
        {...},
    ]
    dataset = synapseclient.Dataset(
        name="My Dataset",
        parent=project,
        dataset_items=dataset_items
    )
    dataset = syn.store(dataset)
    # Add/remove specific Synapse IDs to/from the Dataset
    dataset.add_item({'entityId': "syn111", 'versionNumber': 1})
    dataset.remove_item("syn000")
    dataset = syn.store(dataset)
    # Add a single Folder to the Dataset
    # this will recursively add all the files in the folder
    dataset.add_folder("syn123")
    # Add a list of Folders, overwriting any existing files in the dataset
    dataset.add_folders(["syn456", "syn789"], force=True)
  

... (truncated)

Commits

• 137a90d Merge pull request #956 from Sage-Bionetworks/hotfix-action-runner
• 25ddfe3 Update action versions
• 6c8287d update github output
• 489aa6a Don't use deprecated set-output
• ad3f837 Upgrade ubuntu runner
• 1e1ab30 Merge pull request #955 from Sage-Bionetworks/SYNPY-1256-lockdown-pandas-version
• 65b92ac update doc v2.7.1
• ade0451 version v2.7.1 docs
• 0be5514 version v2.7.1 docs
• ef5ad54 Remove linting issue
• Additional commits viewable in compare view

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