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Fixes for column filtering and sorting problems introduced in change set 4275:
eea6144270bf. Queries that include table joins cannot guarantee unique column names, so add support to the grid framework for <column>.key values like <TableName>.<ColumnName>. Enhance the tool shed grids to take advantage of this so that sorting snd filtering on columns is functionally correct.
This commit is contained in:
Greg Von Kuster
@@ -91,29 +91,33 @@ class Grid( object ):
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if use_default_filter:
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if self.default_filter:
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column_filter = self.default_filter.get( column.key )
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elif "f-" + column.key in kwargs:
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elif "f-" + column.model_class.__name__ + ".%s" % column.key in kwargs:
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# Queries that include table joins cannot guarantee unique column names. This problem is
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# handled by setting the column_filter value to <TableName>.<ColumnName>.
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column_filter = kwargs.get( "f-" + column.model_class.__name__ + ".%s" % column.key )
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elif "f-" + column.key in kwargs:
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column_filter = kwargs.get( "f-" + column.key )
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elif column.key in base_filter:
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column_filter = base_filter.get( column.key )
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# Method (1) combines a mix of strings and lists of strings into a single string and (2) attempts to de-jsonify all strings.
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def from_json_string_recurse(item):
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decoded_list = []
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if isinstance( item, basestring):
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try:
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# Not clear what we're decoding, so recurse to ensure that we catch everything.
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decoded_item = from_json_string( item )
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if isinstance( decoded_item, list):
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decoded_list = from_json_string_recurse( decoded_item )
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else:
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decoded_list = [ unicode( decoded_item ) ]
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except ValueError:
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decoded_list = [ unicode ( item ) ]
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elif isinstance( item, list):
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return_val = []
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for element in item:
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a_list = from_json_string_recurse( element )
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decoded_list = decoded_list + a_list
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return decoded_list
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decoded_list = []
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if isinstance( item, basestring):
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try:
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# Not clear what we're decoding, so recurse to ensure that we catch everything.
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decoded_item = from_json_string( item )
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if isinstance( decoded_item, list):
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decoded_list = from_json_string_recurse( decoded_item )
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else:
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decoded_list = [ unicode( decoded_item ) ]
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except ValueError:
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decoded_list = [ unicode ( item ) ]
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elif isinstance( item, list):
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return_val = []
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for element in item:
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a_list = from_json_string_recurse( element )
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decoded_list = decoded_list + a_list
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return decoded_list
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# If column filter found, apply it.
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if column_filter is not None:
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# TextColumns may have a mix of json and strings.
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@@ -128,7 +132,7 @@ class Grid( object ):
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if column_filter == '':
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continue
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# Update query.
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query = column.filter( trans, trans.get_user(), query, column_filter )
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query = column.filter( trans, trans.user, query, column_filter )
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# Upate current filter dict.
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cur_filter_dict[ column.key ] = column_filter
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# Carry filter along to newly generated urls; make sure filter is a string so
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@@ -150,17 +154,30 @@ class Grid( object ):
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sort_key = kwargs['sort']
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elif base_sort_key:
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sort_key = base_sort_key
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if sort_key:
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if sort_key.startswith( "-" ):
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ascending = False
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column_key = sort_key[1:]
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if sort_key:
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ascending = not( sort_key.startswith( "-" ) )
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# Queries that include table joins cannot guarantee unique column names. This problem is
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# handled by setting the column_filter value to <TableName>.<ColumnName>.
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table_name = None
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if sort_key.find( '.' ) > -1:
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a_list = sort_key.split( '.' )
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if ascending:
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table_name = a_list[0]
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else:
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table_name = a_list[0][1:]
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column_name = a_list[1]
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elif ascending:
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column_name = sort_key
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else:
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ascending = True
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column_key = sort_key
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column_name = sort_key[1:]
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# Sort key is a column key.
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for column in self.columns:
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if column.key == column_key:
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query = column.sort( trans, query, ascending )
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if column.key and column.key.find( '.' ) > -1:
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column_key = column.key.split( '.' )[1]
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else:
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column_key = column.key
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if ( table_name is None or table_name == column.model_class.__name__ ) and column_key == column_name:
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query = column.sort( trans, query, ascending, column_name=column_name )
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break
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extra_url_args['sort'] = sort_key
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# There might be a current row
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@@ -194,7 +211,6 @@ class Grid( object ):
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if self.preserve_state:
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pref_name = unicode( self.__class__.__name__ + self.cur_filter_pref_name )
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trans.get_user().preferences[pref_name] = unicode( to_json_string( cur_filter_dict ) )
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if sort_key:
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pref_name = unicode( self.__class__.__name__ + self.cur_sort_key_pref_name )
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trans.get_user().preferences[pref_name] = unicode( to_json_string( sort_key ) )
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@@ -282,9 +298,7 @@ class GridColumn( object ):
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link=None, attach_popup=False, visible=True, ncells=1, \
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# Valid values for filterable are ['standard', 'advanced', None]
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filterable=None, sortable=True ):
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"""
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Create a grid column.
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"""
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"""Create a grid column."""
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self.label = label
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self.key = key
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self.model_class = model_class
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@@ -297,7 +311,6 @@ class GridColumn( object ):
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self.filterable = filterable
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# Column must have a key to be sortable.
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self.sortable = ( self.key is not None and sortable )
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def get_value( self, trans, grid, item ):
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if self.method:
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value = getattr( grid, self.method )( trans, item )
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@@ -308,12 +321,10 @@ class GridColumn( object ):
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if self.format:
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value = self.format( value )
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return value
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def get_link( self, trans, grid, item ):
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if self.link and self.link( item ):
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return self.link( item )
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return None
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def filter( self, trans, user, query, column_filter ):
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""" Modify query to reflect the column filter. """
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if column_filter == "All":
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@@ -323,7 +334,6 @@ class GridColumn( object ):
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elif column_filter == "False":
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query = query.filter_by( **{ self.key: False } )
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return query
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def get_accepted_filters( self ):
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""" Returns a list of accepted filters for this column. """
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accepted_filters_vals = [ "False", "True", "All" ]
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@@ -332,19 +342,20 @@ class GridColumn( object ):
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args = { self.key: val }
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accepted_filters.append( GridColumnFilter( val, args) )
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return accepted_filters
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def sort( self, trans, query, ascending ):
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""" Sort query using this column. """
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def sort( self, trans, query, ascending, column_name=None ):
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"""Sort query using this column."""
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if column_name is None:
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column_name = self.key
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if ascending:
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query = query.order_by( self.model_class.table.c.get( self.key ).asc() )
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query = query.order_by( self.model_class.table.c.get( column_name ).asc() )
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else:
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query = query.order_by( self.model_class.table.c.get( self.key ).desc() )
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query = query.order_by( self.model_class.table.c.get( column_name ).desc() )
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return query
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class ReverseSortColumn( GridColumn ):
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""" Column that reverses sorting; this is useful when the natural sort is descending. """
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def sort( self, trans, query, ascending ):
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return GridColumn.sort( self, trans, query, (not ascending) )
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def sort( self, trans, query, ascending, column_name=None ):
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return GridColumn.sort( self, trans, query, (not ascending), column_name=column_name )
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class TextColumn( GridColumn ):
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""" Generic column that employs freetext and, hence, supports freetext, case-independent filtering. """
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@@ -365,21 +376,37 @@ class TextColumn( GridColumn ):
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clause_list.append( self.get_single_filter( user, filter ) )
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return and_( *clause_list )
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def get_single_filter( self, user, a_filter ):
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""" Returns a SQLAlchemy criterion derived for a single filter. Single filter is the most basic filter--usually a string--and cannot be a list. """
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model_class_key_field = getattr( self.model_class, self.key )
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return func.lower( model_class_key_field ).like( "%" + a_filter.lower() + "%" )
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def sort( self, trans, query, ascending ):
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"""Sort column using case-insensitive alphabetical sorting."""
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if ascending:
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query = query.order_by( func.lower( self.model_class.table.c.get( self.key ) ).asc() )
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"""
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Returns a SQLAlchemy criterion derived for a single filter. Single filter
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is the most basic filter--usually a string--and cannot be a list.
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"""
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# Queries that include table joins cannot guarantee that table column names will be
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# unique, so check to see if a_filter is of type <TableName>.<ColumnName>.
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if self.key.find( '.' ) > -1:
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a_key = self.key.split( '.' )[1]
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else:
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query = query.order_by( func.lower( self.model_class.table.c.get( self.key ) ).desc() )
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a_key = self.key
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model_class_key_field = getattr( self.model_class, a_key )
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return func.lower( model_class_key_field ).like( "%" + a_filter.lower() + "%" )
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def sort( self, trans, query, ascending, column_name=None ):
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"""Sort column using case-insensitive alphabetical sorting."""
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if column_name is None:
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column_name = self.key
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if ascending:
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query = query.order_by( func.lower( self.model_class.table.c.get( column_name ) ).asc() )
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else:
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query = query.order_by( func.lower( self.model_class.table.c.get( column_name ) ).desc() )
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return query
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class DateTimeColumn( TextColumn ):
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def sort( self, trans, query, ascending ):
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def sort( self, trans, query, ascending, column_name=None ):
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"""Sort query using this column."""
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return GridColumn.sort( self, trans, query, ascending )
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return GridColumn.sort( self, trans, query, ascending, column_name=column_name )
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class BooleanColumn( TextColumn ):
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def sort( self, trans, query, ascending, column_name=None ):
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"""Sort query using this column."""
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return GridColumn.sort( self, trans, query, ascending, column_name=column_name )
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class IntegerColumn( TextColumn ):
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"""
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@@ -402,9 +429,9 @@ class IntegerColumn( TextColumn ):
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model_class_key_field = getattr( self.model_class, self.key )
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assert int( a_filter ), "The search entry must be an integer"
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return model_class_key_field == int( a_filter )
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def sort( self, trans, query, ascending ):
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def sort( self, trans, query, ascending, column_name=None ):
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"""Sort query using this column."""
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return GridColumn.sort( self, trans, query, ascending )
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return GridColumn.sort( self, trans, query, ascending, column_name=column_name )
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class CommunityRatingColumn( GridColumn, UsesItemRatings ):
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""" Column that displays community ratings for an item. """
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@@ -414,7 +441,7 @@ class CommunityRatingColumn( GridColumn, UsesItemRatings ):
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ave_item_rating=ave_item_rating,
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num_ratings=num_ratings,
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item_id=trans.security.encode_id( item.id ) )
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def sort( self, trans, query, ascending ):
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def sort( self, trans, query, ascending, column_name=None ):
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def get_foreign_key( source_class, target_class ):
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""" Returns foreign key in source class that references target class. """
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target_fk = None
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@@ -431,11 +458,11 @@ class CommunityRatingColumn( GridColumn, UsesItemRatings ):
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fk_col = foreign_key.parent
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referent_col = foreign_key.get_referent( self.model_class.table )
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# Do sorting using a subquery.
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db_session = query.session
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# Subquery to get average rating for each item.
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ave_rating_subquery = db_session.query( fk_col, \
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func.avg( item_rating_assoc_class.table.c.rating \
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).label('avg_rating') ).group_by( fk_col ).subquery()
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ave_rating_subquery = trans.sa_session.query( fk_col, \
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func.avg( item_rating_assoc_class.table.c.rating ).label('avg_rating') ) \
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.group_by( fk_col ) \
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.subquery()
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# Integrate subquery into main query.
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query = query.outerjoin( (ave_rating_subquery, referent_col==ave_rating_subquery.columns[fk_col.name]) )
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# Sort using subquery results; use coalesce to avoid null values.
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@@ -559,7 +586,7 @@ class OwnerColumn( TextColumn ):
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""" Column that lists item's owner. """
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def get_value( self, trans, grid, item ):
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return item.user.username
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def sort( self, trans, query, ascending ):
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def sort( self, trans, query, ascending, column_name=None ):
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""" Sort column using case-insensitive alphabetical sorting on item's username. """
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if ascending:
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query = query.order_by( func.lower ( self.model_class.username ).asc() )
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@@ -441,7 +441,7 @@ class AdminController( BaseController, Admin ):
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del kwd[ k ]
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category_id = kwd.get( 'id', None )
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category = get_category( trans, category_id )
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kwd[ 'f-category' ] = category.name
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kwd[ 'f-Category.name' ] = category.name
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# Render the list view
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return self.tool_list_grid( trans, **kwd )
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@web.expose
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@@ -37,7 +37,7 @@ class ToolListGrid( grids.Grid ):
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class NameColumn( grids.TextColumn ):
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def get_value( self, trans, grid, tool ):
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return tool.name
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class TypeColumn( grids.TextColumn ):
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class TypeColumn( grids.BooleanColumn ):
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def get_value( self, trans, grid, tool ):
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if tool.is_suite:
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return 'Suite'
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@@ -83,7 +83,7 @@ class ToolListGrid( grids.Grid ):
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default_sort_key = "name"
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columns = [
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NameColumn( "Name",
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key="name",
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key="Tool.name",
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link=( lambda item: dict( operation="view_tool", id=item.id, webapp="community" ) ),
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attach_popup=False
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),
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@@ -100,21 +100,23 @@ class ToolListGrid( grids.Grid ):
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),
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CategoryColumn( "Category",
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model_class=model.Category,
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attach_popup=False,
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filterable="advanced" ),
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key="Category.name",
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attach_popup=False ),
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UserColumn( "Uploaded By",
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model_class=model.User,
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link=( lambda item: dict( operation="tools_by_user", id=item.id, webapp="community" ) ),
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attach_popup=False,
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filterable="advanced" ),
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key="username" ),
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grids.CommunityRatingColumn( "Average Rating",
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key="rating" ),
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# Columns that are valid for filtering but are not visible.
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EmailColumn( "Email",
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model_class=model.User,
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key="email",
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visible=False ),
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ToolCategoryColumn( "Category",
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model_class=model.Category,
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key="Category.name",
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visible=False )
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]
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columns.append( grids.MulticolFilterColumn( "Search",
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@@ -130,6 +132,7 @@ class ToolListGrid( grids.Grid ):
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use_paging = True
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def build_initial_query( self, trans, **kwd ):
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return trans.sa_session.query( self.model_class ) \
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.join( model.User.table ) \
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.join( model.ToolEventAssociation.table ) \
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.join( model.Event.table ) \
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.outerjoin( model.ToolCategoryAssociation.table ) \
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@@ -20,6 +20,7 @@ class StateColumn( grids.TextColumn ):
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else:
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state_color = state
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return '<div class="count-box state-color-%s">%s</div>' % ( state_color, state )
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class ToolStateColumn( grids.StateColumn ):
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def filter( self, trans, user, query, column_filter ):
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"""Modify query to filter self.model_class by state."""
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@@ -174,7 +175,7 @@ class ToolController( BaseController ):
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del kwd[ k ]
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category_id = kwd.get( 'id', None )
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category = get_category( trans, category_id )
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kwd[ 'f-category' ] = category.name
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kwd[ 'f-Category.name' ] = category.name
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# Make sure only the latest version of a tool whose state is APPROVED are displayed.
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kwd[ 'f-state' ] = trans.model.Tool.states.APPROVED
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# Render the list view
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@@ -83,11 +83,11 @@ class Tool( object ):
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continue
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if root.tag == 'tool':
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if 'id' not in root.keys():
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raise DatatypeVerificationError( "Tool xml file (%s) does not include the required 'id' attribute in the <tool> tag" % str( xml_file ) )
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raise DatatypeVerificationError( "Tool xml file (%s) does not include the required 'id' attribute in the <tool> tag" % str( xml_file ) )
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if 'name' not in root.keys():
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raise DatatypeVerificationError( "Tool xml file (%s) does not include the required 'name' attribute in the <tool> tag" % str( xml_file ) )
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raise DatatypeVerificationError( "Tool xml file (%s) does not include the required 'name' attribute in the <tool> tag" % str( xml_file ) )
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if 'version' not in root.keys():
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raise DatatypeVerificationError( "Tool xml file (%s) does not include the required 'version' attribute in the <tool> tag" % str( xml_file ) )
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raise DatatypeVerificationError( "Tool xml file (%s) does not include the required 'version' attribute in the <tool> tag" % str( xml_file ) )
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if tool_tags:
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# We are verifying the tools inside a tool suite, so the current tag should have been found in the suite_config.xml
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# file parsed in the ToolSuite verify() method. The tool_tags dictionary should include a key matching the current
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@@ -434,37 +434,39 @@
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<li><a class="action-button" href="${h.url_for( controller='library_common', action='upload_library_dataset', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), folder_id=trans.security.encode_id( library.root_folder.id ), use_panels=use_panels, show_deleted=show_deleted )}"><span>Add datasets</span></a></li>
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<li><a class="action-button" href="${h.url_for( controller='library_common', action='create_folder', cntrller=cntrller, parent_id=trans.security.encode_id( library.root_folder.id ), library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Add folder</a></li>
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%endif
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<li><a class="action-button" id="library-${library.id}-popup" class="menubutton">Library Actions</a></li>
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<div popupmenu="library-${library.id}-popup">
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%if not library.deleted:
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%if can_modify:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='library_info', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit information</a>
|
||||
<a class="action-button" confirm="Click OK to delete the library named '${library.name}'." href="${h.url_for( controller='library_common', action='delete_library_item', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_id=trans.security.encode_id( library.id ), item_type='library' )}">Delete this data library</a>
|
||||
%if show_deleted:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='browse_library', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=False )}">Hide deleted items</a>
|
||||
%else:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='browse_library', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=True )}">Show deleted items</a>
|
||||
%if ( ( not library.deleted ) and ( can_modify or can_manage ) ) or ( can_modify and not library.purged ) or ( library.purged ):
|
||||
<li><a class="action-button" id="library-${library.id}-popup" class="menubutton">Library Actions</a></li>
|
||||
<div popupmenu="library-${library.id}-popup">
|
||||
%if not library.deleted:
|
||||
%if can_modify:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='library_info', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit information</a>
|
||||
<a class="action-button" confirm="Click OK to delete the library named '${library.name}'." href="${h.url_for( controller='library_common', action='delete_library_item', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_id=trans.security.encode_id( library.id ), item_type='library' )}">Delete this data library</a>
|
||||
%if show_deleted:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='browse_library', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=False )}">Hide deleted items</a>
|
||||
%else:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='browse_library', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=True )}">Show deleted items</a>
|
||||
%endif
|
||||
%endif
|
||||
%endif
|
||||
%if can_modify and not library.info_association:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='add_template', cntrller=cntrller, item_type='library', library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Add template</a>
|
||||
%endif
|
||||
%if can_modify and info_association:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='edit_template', cntrller=cntrller, item_type='library', library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit template</a>
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='delete_template', cntrller=cntrller, item_type='library', library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Delete template</a>
|
||||
%endif
|
||||
%if can_manage:
|
||||
%if not trans.app.security_agent.library_is_public( library, contents=True ):
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='make_library_item_public', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_type='library', id=trans.security.encode_id( library.id ), contents=True, use_panels=use_panels, show_deleted=show_deleted )}">Make public</a>
|
||||
%if can_modify and not library.info_association:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='add_template', cntrller=cntrller, item_type='library', library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Add template</a>
|
||||
%endif
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='library_permissions', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit permissions</a>
|
||||
%if can_modify and info_association:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='edit_template', cntrller=cntrller, item_type='library', library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit template</a>
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='delete_template', cntrller=cntrller, item_type='library', library_id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Delete template</a>
|
||||
%endif
|
||||
%if can_manage:
|
||||
%if not trans.app.security_agent.library_is_public( library, contents=True ):
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='make_library_item_public', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_type='library', id=trans.security.encode_id( library.id ), contents=True, use_panels=use_panels, show_deleted=show_deleted )}">Make public</a>
|
||||
%endif
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='library_permissions', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">Edit permissions</a>
|
||||
%endif
|
||||
%elif can_modify and not library.purged:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='undelete_library_item', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_id=trans.security.encode_id( library.id ), item_type='library', use_panels=use_panels )}">Undelete this data library</a>
|
||||
%elif library.purged:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='browse_library', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">This data library has been purged</a>
|
||||
%endif
|
||||
%elif can_modify and not library.purged:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='undelete_library_item', cntrller=cntrller, library_id=trans.security.encode_id( library.id ), item_id=trans.security.encode_id( library.id ), item_type='library', use_panels=use_panels )}">Undelete this data library</a>
|
||||
%elif library.purged:
|
||||
<a class="action-button" href="${h.url_for( controller='library_common', action='browse_library', cntrller=cntrller, id=trans.security.encode_id( library.id ), use_panels=use_panels, show_deleted=show_deleted )}">This data library has been purged</a>
|
||||
%endif
|
||||
</div>
|
||||
</div>
|
||||
%endif
|
||||
</ul>
|
||||
|
||||
%if message:
|
||||
|
||||
Reference in New Issue
Block a user