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Added a tag column in the GO browser to help link it to selections.

This commit is contained in:
Einar Ryeng 2007-03-01 19:13:13 +00:00
parent 442b5fed5f
commit ae9a207a71
2 changed files with 39 additions and 4 deletions
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3
workflows/geneontology.py
View File

@ -192,12 +192,13 @@ def read_default_go():
def _add_subgraphs(treestore, ontology, parent, nodes):
for n in nodes:
i = treestore.insert(parent, 0, (n['id'], n['name'], n))
i = treestore.insert(parent, 0, (n['id'], n['name'], False, n))
_add_subgraphs(treestore, ontology, i, ontology.successors(n))
def get_go_treestore(ontology):
ts = gtk.TreeStore(gobject.TYPE_STRING, ## ID
gobject.TYPE_STRING, ## Name
gobject.TYPE_BOOLEAN, ## Selected
gobject.TYPE_PYOBJECT) ## Node
_add_subgraphs(ts, ontology, None, [ontology.get_bp()])
return ts

40
workflows/go_workflow.py
View File

@ -77,6 +77,10 @@ class GeneOntologyTree (gtk.HPaned):
self._treemodel = treemodel
self._tree_view = gtk.TreeView(treemodel)
self._selected_terms = set()
self._tree_view.set_fixed_height_mode(True)
# Set up context menu
self._context_menu = GoTermContextMenu(treemodel, self._tree_view)
self._tree_view.connect('popup_menu', self._popup_menu)
@ -84,11 +88,28 @@ class GeneOntologyTree (gtk.HPaned):
renderer = gtk.CellRendererText()
go_column = gtk.TreeViewColumn('GO ID', renderer, text=0)
go_column.set_sizing(gtk.TREE_VIEW_COLUMN_FIXED)
go_column.set_fixed_width(200)
go_column.set_resizable(True)
self._tree_view.insert_column(go_column, 0)
renderer = gtk.CellRendererToggle()
renderer.set_property('activatable', True)
renderer.connect('toggled', self._toggle_selected)
renderer.set_active(True)
renderer.set_property('mode', gtk.CELL_RENDERER_MODE_ACTIVATABLE)
go_column = gtk.TreeViewColumn('T', renderer, active=2)
go_column.set_fixed_width(20)
go_column.set_sizing(gtk.TREE_VIEW_COLUMN_FIXED)
go_column.set_resizable(True)
self._tree_view.insert_column(go_column, 1)
renderer = gtk.CellRendererText()
go_column = gtk.TreeViewColumn('Name', renderer, text=1)
self._tree_view.insert_column(go_column, 1)
go_column.set_fixed_width(200)
go_column.set_sizing(gtk.TREE_VIEW_COLUMN_FIXED)
go_column.set_resizable(True)
self._tree_view.insert_column(go_column, 2)
self._desc_view = GoTermView()
@ -103,7 +124,7 @@ class GeneOntologyTree (gtk.HPaned):
def _on_cursor_changed(self, tree):
path, col = self._tree_view.get_cursor()
current = self._treemodel.get_iter(path)
term = self._treemodel.get_value(current, 2)
term = self._treemodel.get_value(current, 3)
self._desc_view.set_go_term(term)
@ -119,7 +140,7 @@ class GeneOntologyTree (gtk.HPaned):
if path:
iter = self._treemodel.get_iter(path[0])
obj = self._treemodel.get_value(iter, 2)
obj = self._treemodel.get_value(iter, 3)
else:
obj = None
@ -128,6 +149,19 @@ class GeneOntologyTree (gtk.HPaned):
if event.button == 3:
self._context_menu.popup(None, None, None, event.button, event.time)
def _toggle_selected(self, renderer, path):
iter = self._treemodel.get_iter(path)
selected = self._treemodel.get_value(iter, 2)
id = self._treemodel.get_value(iter, 0)
self._treemodel.set_value(iter, 2, not selected)
if selected:
self._selected_terms.remove(id)
else:
self._selected_terms.add(id)
class GoTermContextMenu (gtk.Menu):
"""Context menu for GO terms in the gene ontology browser"""