Sasdata database redux#213

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krzywon wants to merge 966 commits into

refactor_24from

sasdata-database-merged

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Commits on Jun 3, 2026

Change permissions handling for load and upload

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Change permissions handling for download

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Return bad request for non put or push upload

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Add tests for accessing nonexistent data

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Comment out unfinished test line

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Read download files to ensure they close - attempt to fix unit test failures on windows

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Fix typo

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Preliminary documentation for models

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Base abstract model for user and is_public

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Enable list other users' public data

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404 for list by nonexistent username

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Switch to filter by username param not request user

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Change permissions tests to expected user list behavior

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Change data tests to expected user list behavior

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Create initial version of dataset model

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Start OperationTree model

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Start Session model

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Begin SasData serializers

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Start of Quantity serializer

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Serializer for NamedQuantity

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Continue SasData serializer and add notes

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Add class for MetaData model

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Temporarily comment out unmigrated models

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Serializers for units

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QuantityHistory serializer

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Serializers for Dataset and Group

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Framework for metadata serializers

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Instrument metadata serializers

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Finish metadata serializers

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Updates to in-progess data models

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Initial versions of phase 1 models

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model migrations

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Add field for authorized non-owners for data

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Change permissions to check users with access instead of just ownership

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Ensure owner can access data

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Bare bones serializers for database models

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Switch serialization methods to non-protected so pycharm stops nagging me

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Deserialization for SasData class

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Deserialization for Group and Dataset classes

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Deserialization for Quantity classes

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Add functionality to give and remove access to a file

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Add response to access management view

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Tests for access granting/removal

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Fix errors in access management view

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More tests for access management

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Remove redundant code in permissions

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QuantityType serialisation for some types

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Allow viewing who has access to a file

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Test listing users with access to a file

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Test permissions on file access management views

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Serialize variance not standard deviation

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Finish models pending later changes

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Add to documentation on future ORCID integration

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Change data creation status code to 201

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Modify tests to run faster

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Change authentication tests to run faster

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Speed up data tests

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One more attempt to speed up user_app tests

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Create view to delete a file

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Tests for file delete

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Reorganize data tests

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Start planning tests for dataset

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Initial version of DataSetView

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General structure of dataset views

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Updated version of DataSetView pending serialization changes

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First draft of SingleDataSetView

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First draft for DataSetUsersView

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Add filter based on username in get request body

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Nested metadata serialization

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Fix error in paths

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Structure for dataset tests

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Fix filtering by username

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Tests for listing datasets

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Tests for loading a dataset

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Test for deleting a dataset

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Fix error in permissions check

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Tests for updating a dataset

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Only allow data owner to view/manage access

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Tests for listing users with access to a dataset

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Test granting access to dataset

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Fix dataset creation

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Set owner when data is created

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Disallow creating private data without an owner

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Finish tests for DataSetView

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Fix error in accessing request user from serializer

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Modify existing SingleDataSet tests

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Tests for unauthorized deletes

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Finish DataSetAccessManagement tests

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Allow private data owner to change, not just public

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Document dataset tests + one more test

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Documentation for datafile tests

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Tests to make sure a user can't specify a data object id

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Add operation/parameters fields to OperationTree model

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Change response status to 401 for unauthenticated

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Change tests to reflect status code change

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Skeleton of reformatted data file API

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Fill out DataFileView methods

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Change serializer validation to raise exception

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SingleDataFileView methods

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DataFileUsersView methods

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Update urls for DataFile

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Fix error in get method for file download

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Fix error in datafile post

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Update tests for url changes

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Updates for changes to SasData class

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Add published state to session model

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Update metadata serializers for latest changes

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Update metadata model for recent changes

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Account for metadata changes in test

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Changes to OperationTree model

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Change metadata serialization in SasData serialization method

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Change defaults and designate allowed operations for metadata/operations models

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Customize creation in OperationTreeSerializer

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Quantity model

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Change SasData serializer to facilitate database deserialization

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Nested quantity serialization in DataSetSerializer

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Add nested quantities to tests

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Comment out failing sasdata tests until they get fixed

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Edits to github actions/yml files

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Clarify logic in permissions

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Test tokens valid on multiple login

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Remove mysterious extra spaces

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Change operations model to refer to quantity

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Add nested serialization for operation tree in quantity

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Make operations tree optional for a quantity

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Rename api clients in tests for clarity

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Restrict Django test runner to database tests

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String representation of units for serialization

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Change and test response for changing access to a DataFile

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Add hash value to quantity serialization

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Delete old method-based views

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Change and test response for DataSet access management

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Serialization for QuantityType

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Empty class for operation testing

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PublishedState and Session models

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Empty classes for session views

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Basic serializer for session

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Nested serializers in SessionSerializer

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session post method

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Session access management views

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urls for sessions

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methods for SingleSessionView - might need to revise later

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Switch key from OperationTree to Quantity

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Add nested OperationTree to Quantity serializer

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Add title to Session

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Use numerical_encoding in sasdata for QuantityType serialization/deserialization

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Change some comments in models

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Fix some bugs in operation tree deserialization

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Test creation of operation trees

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Test creating a quantity with no operations performed on it

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Test creating an operation tree with an invalid operation

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Store quantity label as part of quantity

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Customize OperationTree serialization from database representation

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Test GET with unary operation

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More tests for GET with operation trees

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Fix minor bug in OperationTree tests

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Comments and planning for OperationTree testing

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Reorganize OperationTree tests and move to dedicated file

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Tests for tensor product operation

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Validate nested operations and check parameters based on type

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Test creating invalid non-top-level operation fails

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Separate class for invalid operation tree testing

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Check operation trees only in operation tree get tests

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Test creating operations with missing parameters fails

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Test creating a quantity with no history

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Check whether deleting a dataset deletes its quantities (it doesn't) (this is kind of a problem)

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Test whether deleting a dataset/its quantities deletes operations (it doesn't do this either)

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Try switching from many-to-many to one-to-many relationship for DataSet and Quantity

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Change operations test setup to account for altered model relationship

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Remove dataset id from serialized quantity

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Prevent deleting parent operations instead of cascading

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Automatically delete OperationTrees when quantities are deleted

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Test nested OperationTree instances are deleted

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Change direction of DataSet/MetaData relationship for automatic deletion

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Change direction of Quantity/OperationTree relationship for automatic deletion

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Change direction of Session/DataSet relationship for automatic deletion

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Change direction of Session/PublishedState relationship for automatic deletion

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Change direction of OperationTree parent-child links for automatic delete

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Serializer for session

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Get method for Sessions

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Return is_public in access management GET requests

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Remove dataset id from MetaData instance serialization

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Test GET dataset with metadata

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Add comments to serializer classes

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Fix serialization of DataSet with files

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Check access to files in a dataset

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Test DataSet creation with files

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Filter files in dataset by access

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Test loading dataset with files

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Start session tests

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Copy session is_public value to composing datasets

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Test listing sessions

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Fix bugs in DataSet creation nested in a Session

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Include username and authentication status in all post responses

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Disallow creating private sessions without an owner

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Test Session post method

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Use the right serializer for sessions and return id with get

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Test get method for individual sessions

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Test put method for individual sessions

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Test Session delete method

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Propagate access changes from session to composing datasets

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Test Session access management

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Return current_user as username not id

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Comments of session testing

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Add field for history references to Quantity

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Serialization for Quantity variable references

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Change serialization of QuantityHistory references to match API

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Serialize Quantity operation_tree and references as history

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Remove infinite serialization loop of quantities and histories

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Separate model for history reference quantities

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Test references in quantity history

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Add tests to test updating a DataSet

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Propagate update to session is_public to datasets

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PublishedState serialization and minor serializer create method simplifications

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Outline of PublishedState views

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PublishedState list method

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Serializer to restrict PublishedState update to published field

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Post method for PublishedState

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Get method for single PublishedState

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Update method for PublishedState

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Delete method for PublishedState

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Planning for PublishedState testing

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PublishedState urls

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Test listing published states

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Fix bugs in PublishedState creation

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Check that session doesn't already have a published state

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Test creating a published state

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Add fields to PublishedState get response

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Test individual PublishedState get method

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Test PublishedState update method

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Test PublishedState delete method

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Session creation example script

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Add models to admin interface

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Account for json strings in post requests

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Enable session-based authentication

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Comments for PublishedState tests

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Test that metadata is required for dataset creation

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Minor changes suggested by Jeff

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Nested PublishedState update in Session

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Test nested PublishedState

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Test listing published states by username

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Deserialization methods for sasdata structures

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ruff formatting changes
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merge refactor_24 into sasdata-database-cherry-pick-merge and resolve conflicts
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ruff fixes
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ruff fixes
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merge refactor_24 into sasdata-database-merge and resolve conflicts
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