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Methods
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Close
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Close ( self )
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ImportXML
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ImportXML ( self )
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add_marker
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add_marker (
self,
pointer_x,
pointer_y,
place_markers_on_data,
place_markers_on_space,
)
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add_marker_3d
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add_marker_3d ( self, xyz )
Used with 3D input devices.
The user interface option to turn on and off marker placement and motion
apply are intended only to restrict mouse input. So they are not checked
here.
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add_marker_set
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add_marker_set ( self, marker_set )
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all_current_markers
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all_current_markers ( self )
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allow_toplevel_resize_cb
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allow_toplevel_resize_cb ( self )
After user resizes dialog by hand it will not resize automatically when
panels are added or deleted. This allows the automatic resize to happen.
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ask_for_save_path
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ask_for_save_path (
self,
title,
default_path,
)
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bind_placement_button
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bind_placement_button ( self, bind )
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bind_placement_button_cb
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bind_placement_button_cb ( self )
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chosen_note_markers
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chosen_note_markers ( self )
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close_marker_set_cb
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close_marker_set_cb ( self )
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close_session_cb
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close_session_cb (
self,
trigger,
a1,
a2,
)
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consecutive_selection_cb
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consecutive_selection_cb ( self )
This code relies on markers being implemented as atoms.
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create_link
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create_link (
self,
m1,
m2,
rgba,
radius,
)
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data_region
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data_region ( self )
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data_slice
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data_slice (
self,
pointer_x,
pointer_y,
)
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delete_links_cb
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delete_links_cb ( self )
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delete_marker_notes_cb
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delete_marker_notes_cb ( self )
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delete_markers_cb
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delete_markers_cb ( self )
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display_slice_line
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display_slice_line ( self, slice )
Make a VRML line containing a single line connecting 2 points.
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drop_and_link_marker
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drop_and_link_marker (
self,
xyz,
rgba,
marker_radius,
link_radius,
marker_set,
)
Xyz position must be in marker set coordinates.
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erase_slice_line
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erase_slice_line ( self )
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fillInUI
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fillInUI ( self, parent )
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find_marker_set_by_name
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find_marker_set_by_name ( self, name )
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form_link_cb
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form_link_cb (
self,
trigger,
user_data,
selection,
)
Link consecutively selected_markers.
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get_file_path
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get_file_path (
self,
mslist,
ask_path,
)
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grab_marker
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grab_marker (
self,
pointer_x,
pointer_y,
)
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grab_marker_3d
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grab_marker_3d ( self, xyz )
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link_color_cb
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link_color_cb ( self, rgba )
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link_radius
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link_radius ( self, data_region=None )
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link_radius_cb
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link_radius_cb ( self, event )
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make_curve_panel
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make_curve_panel ( self, frame )
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make_marker_sets_panel
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make_marker_sets_panel ( self, frame )
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make_markers_panel
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make_markers_panel ( self, frame )
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make_mouse_mode_panel
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make_mouse_mode_panel ( self, frame )
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make_slice_panel
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make_slice_panel ( self, frame )
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map
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map ( self, event )
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mark_clip_planes_midpoint
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mark_clip_planes_midpoint (
self,
pointer_x,
pointer_y,
marker_set,
)
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mark_data
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mark_data (
self,
xyz,
marker_set,
)
Place marker if data value is above detection threshold.
Xyz position must be in Chimera world coordinates.
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mark_first_maximum
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mark_first_maximum (
self,
slice,
marker_set,
)
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mark_point
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mark_point (
self,
xyz,
marker_set,
)
Xyz position must be in Chimera world coordinates.
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mark_slice_midpoint
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mark_slice_midpoint (
self,
slice,
marker_set,
)
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marker_and_link_radius
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marker_and_link_radius (
self,
marker_set,
data_region=None,
)
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marker_color_cb
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marker_color_cb ( self, rgba )
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marker_note_cb
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marker_note_cb ( self, event )
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marker_radius
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marker_radius (
self,
data_region=None,
marker_set=None,
)
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marker_radius_cb
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marker_radius_cb ( self, event )
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marker_set_menu_cb
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marker_set_menu_cb ( self )
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marker_set_selection_cb
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marker_set_selection_cb ( self, event )
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message
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message ( self, string )
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mouse_down_cb
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mouse_down_cb (
self,
viewer,
event,
)
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mouse_drag_cb
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mouse_drag_cb (
self,
viewer,
event,
)
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mouse_mode_icon
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mouse_mode_icon ( self )
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mouse_up_cb
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mouse_up_cb (
self,
viewer,
event,
)
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move_marker
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move_marker (
self,
pointer_x,
pointer_y,
shift,
)
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move_marker_3d
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move_marker_3d ( self, xyz )
Used with 3D input devices.
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move_marker_cb
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move_marker_cb ( self, event )
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new_marker_set
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new_marker_set ( self, name )
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new_marker_set_cb
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new_marker_set_cb ( self )
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note_color_cb
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note_color_cb ( self, rgba )
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open_file_dialog_cb
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open_file_dialog_cb (
self,
apply,
dialog,
)
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open_marker_set
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open_marker_set ( self, path )
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open_marker_set_cb
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open_marker_set_cb ( self )
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placement_button_spec
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placement_button_spec ( self )
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remove_marker_sets
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remove_marker_sets ( self, marker_sets )
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rename_marker_set_cb
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rename_marker_set_cb ( self, event )
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reset_thresholds_cb
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reset_thresholds_cb ( self )
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save_all_marker_sets_cb
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save_all_marker_sets_cb ( self )
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save_marker_set_as_cb
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save_marker_set_as_cb ( self )
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save_marker_set_cb
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save_marker_set_cb ( self )
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save_marker_sets
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save_marker_sets (
self,
mslist,
ask_path,
)
Save marker sets in one file.
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save_selected_marker_sets_cb
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save_selected_marker_sets_cb ( self )
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save_session_cb
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save_session_cb (
self,
trigger,
x,
file,
)
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select_marker
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select_marker ( self, marker )
Select new marker and deselect other markers.
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select_marker_3d
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select_marker_3d ( self, xyz )
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selected_links
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selected_links ( self )
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selected_marker_sets
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selected_marker_sets ( self )
If no list box line is selected, include the active marker set.
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selected_markers
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selected_markers ( self )
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set_active_marker_set
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set_active_marker_set ( self, marker_set )
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show_curve_cb
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show_curve_cb ( self )
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show_links
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show_links ( self, show )
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show_marker_notes
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show_marker_notes ( self, show )
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show_markers
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show_markers ( self, show )
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show_note_cb
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show_note_cb (
self,
trigger,
user_data,
selection,
)
Update marker note entry field when marker is selected.
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show_slice_line_cb
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show_slice_line_cb ( self )
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show_slice_maximum
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show_slice_maximum ( self, t_max )
Put vertical line on graph to indicate first maximum.
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transfer_markers_cb
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transfer_markers_cb ( self )
Transfer selected markers to current marker set.
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ungrab_marker
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ungrab_marker ( self )
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unmap
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unmap ( self, event )
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unselect_all_markers
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unselect_all_markers ( self )
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unshow_curve_cb
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unshow_curve_cb ( self )
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update_marker_set_listbox
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update_marker_set_listbox ( self )
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update_slice_graphs
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update_slice_graphs ( self, slice )
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visible_data_above_threshold
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visible_data_above_threshold (
self,
data_region,
xyz,
)
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volume_segment
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volume_segment (
self,
data_region,
pointer_x,
pointer_y,
)
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