1 new commit in galaxy-central:

https://bitbucket.org/galaxy/galaxy-central/changeset/63f3b0857be8/ changeset: 63f3b0857be8 user: carlfeberhard date: 2012-10-30 21:46:55 summary: controller/UsesHistoryDatasetAssociation: get_dataset: allow encoded ids; get_dataset, get_history_dataset_association: add check_state param: check hda.state == 'UPLOADING' to allow api fetch on uploading files, (should be backwards compat with existing calls) affected #: 1 file

diff -r 2e70816299e40fecc4902adda54126bb00316588 -r 63f3b0857be8dae339622b23aa8d10b1ff3f3757 lib/galaxy/web/base/controller.py --- a/lib/galaxy/web/base/controller.py +++ b/lib/galaxy/web/base/controller.py @@ -244,20 +244,22 @@ class UsesHistoryDatasetAssociationMixin: """ Mixin for controllers that use HistoryDatasetAssociation objects. """

- def get_dataset( self, trans, dataset_id, check_ownership=True, check_accessible=False ): + def get_dataset( self, trans, dataset_id, check_ownership=True, check_accessible=False, check_state=True ): """ Get an HDA object by id. """ # DEPRECATION: We still support unencoded ids for backward compatibility try: - data = trans.sa_session.query( trans.app.model.HistoryDatasetAssociation ).get( trans.security.decode_id( dataset_id ) ) - if data is None: - raise ValueError( 'Invalid reference dataset id: %s.' % dataset_id ) + # encoded id? + dataset_id = trans.security.decode_id + + except ( AttributeError, TypeError ), err: + # unencoded id + dataset_id = int( dataset_id ) + + try: + data = trans.sa_session.query( trans.app.model.HistoryDatasetAssociation ).get( int( dataset_id ) ) except: - try: - data = trans.sa_session.query( trans.app.model.HistoryDatasetAssociation ).get( int( dataset_id ) ) - except: - data = None - if not data: raise HTTPRequestRangeNotSatisfiable( "Invalid dataset id: %s." % str( dataset_id ) ) + if check_ownership: # Verify ownership. user = trans.get_user() @@ -265,26 +267,30 @@ error( "Must be logged in to manage Galaxy items" ) if data.history.user != user: error( "%s is not owned by current user" % data.__class__.__name__ ) + if check_accessible: current_user_roles = trans.get_current_user_roles() - if trans.app.security_agent.can_access_dataset( current_user_roles, data.dataset ): - if data.state == trans.model.Dataset.states.UPLOAD: - return trans.show_error_message( "Please wait until this dataset finishes uploading before attempting to view it." ) - else: + + if not trans.app.security_agent.can_access_dataset( current_user_roles, data.dataset ): error( "You are not allowed to access this dataset" ) + + if check_state and data.state == trans.model.Dataset.states.UPLOAD: + return trans.show_error_message( "Please wait until this dataset finishes uploading " + + "before attempting to view it." ) return data

- def get_history_dataset_association( self, trans, history, dataset_id, check_ownership=True, check_accessible=False ): + def get_history_dataset_association( self, trans, history, dataset_id, + check_ownership=True, check_accessible=False, check_state=False ): """Get a HistoryDatasetAssociation from the database by id, verifying ownership.""" self.security_check( trans, history, check_ownership=check_ownership, check_accessible=check_accessible ) hda = self.get_object( trans, dataset_id, 'HistoryDatasetAssociation', check_ownership=False, check_accessible=False, deleted=False )

if check_accessible: - if trans.app.security_agent.can_access_dataset( trans.get_current_user_roles(), hda.dataset ): - if hda.state == trans.model.Dataset.states.UPLOAD: + if not trans.app.security_agent.can_access_dataset( trans.get_current_user_roles(), hda.dataset ): + error( "You are not allowed to access this dataset" ) + + if check_state and hda.state == trans.model.Dataset.states.UPLOAD: error( "Please wait until this dataset finishes uploading before attempting to view it." ) - else: - error( "You are not allowed to access this dataset" ) return hda

def get_data( self, dataset, preview=True ):

Repository URL: https://bitbucket.org/galaxy/galaxy-central/

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