domain + go output work begins

[jalview.git] / forester / aptx / aptx_configuration_files / _aptx_configuration_file

diff --git a/forester/aptx/aptx_configuration_files/_aptx_configuration_file b/forester/aptx/aptx_configuration_files/_aptx_configuration_file
index b2c18ad..f0d78eb 100644 (file)
--- a/forester/aptx/aptx_configuration_files/_aptx_configuration_file
+++ b/forester/aptx/aptx_configuration_files/_aptx_configuration_file
@@ -88,32 +88,30 @@ native_ui: ?
 #                      gradient
 #                      none
 #
-#  To determine what data field to return by clicking on "Return ...": 'ext_descendents_data_to_return'
+#  To determine what data field to return by clicking on "List Node Data": 'list_node_data_field'
 #     Possible values: node_name
 #                      sequence_name
 #                      gene_name
 #                      sequence_acc
-#                      sequence_mol_seq
 #                      sequence_mol_seq_fasta
 #                      sequence_symbol
 #                      taxonomy_scientific_name
 #                      taxonomy_code
-#                      taxonomy_common_name
-#                      user_selected
 #                      domains
 #                      domains_collapsed
 #                      seq_annotations
 #                      go_term_ids
+#                      user_selected
 #
-#  To determine where to return data selected by user clicking on "Return ...": 'ext_descendents_data_to_return_on'
+#  To determine where to return data selected by user clicking on "List Node Data": 'list_node_data_in'
 #     Contents of buffer can be obtained with method 'getCurrentExternalNodesDataBuffer()' of
 #     classes org.forester.archaeopteryx.MainFrame and org.forester.archaeopteryx.ArchaeopteryxE
 #     Possible values: window (for output to window and buffer)
 #                      console (for output to console and buffer)
 #                      buffer_only (for output to buffer only)
 #
-#  To override label for menu item to return data of external nodes (default ""Return ..."): 'label_for_get_ext_descendents_data'
-#     Example: 'label_for_get_ext_descendents_data: Get_Node_Data'
+#  To override label for menu item to return data of external nodes (default "List Node Data"): 'list_node_data_custom_label'
+#     Example: 'list_node_data_custom_label: Get_Node_Data'
 # 
 #  Taxonomy colorization of nodes (shapes) instead of labels: 'taxonomy_colorize_node_shapes': values: 'yes'/'no'
 #
@@ -197,9 +195,9 @@ confidence_value_digits:                   2
 background_gradient:                       no
 allow_editing:                             yes
 allow_thick_strokes:                       no
-ext_descendents_data_to_return_on:         window
-ext_descendents_data_to_return:            user_selected
-#label_for_get_ext_descendents_data:        Return_Node_Data         
+list_node_data_in:                         window
+list_node_data_field:                      user_selected
+list_node_data_custom_label:         
 #  NH/NHX/Nexus file parsing:
 internal_labels_are_confidence_values:     no
 replace_underscores_in_nh_parsing:         no