From c886aa671eb9f66be3ffeb929f315ede36170b37 Mon Sep 17 00:00:00 2001 From: "cmzmasek@gmail.com" Date: Wed, 22 Jan 2014 04:28:50 +0000 Subject: [PATCH] inprogress --- .../aptx_configuration_files/_aptx_configuration_file | 15 ++++++++------- .../aptx_configuration_files/_aptx_configuration_file_1 | 5 +++-- 2 files changed, 11 insertions(+), 9 deletions(-) diff --git a/forester/aptx/aptx_configuration_files/_aptx_configuration_file b/forester/aptx/aptx_configuration_files/_aptx_configuration_file index 8a1ca4b..1bac3a4 100644 --- a/forester/aptx/aptx_configuration_files/_aptx_configuration_file +++ b/forester/aptx/aptx_configuration_files/_aptx_configuration_file @@ -172,7 +172,6 @@ show_default_node_shapes_external: no default_node_size: 4 default_node_shape: rectangle default_node_fill: solid -taxonomy_colorize_node_shapes: no #graphics_export_x: 595 #graphics_export_y: 792 pdf_export_line_width: 0.5 @@ -212,7 +211,7 @@ validate_against_phyloxml_xsd_schema: true phylogram: display ? rollover: display yes -color_according_to_species: display yes +color_according_to_species: display no color_according_to_annotation: display no show_node_names: display yes show_seq_names: display yes @@ -222,7 +221,7 @@ show_gene_names: display yes show_taxonomy_code: display yes show_taxonomy_scientific_names: display yes show_taxonomy_common_names: display no -show_taxonomy_images: display yes +show_taxonomy_images: display no show_annotations: display no write_confidence_values: display ? write_events: display ? @@ -272,14 +271,16 @@ default_click_to: display_node_data display_color: background 0x000000 display_color: background_gradient_bottom 0x0000FF -display_color: sequence 0xDCDCDC -display_color: taxonomy 0xB4B4B4 -display_color: confidence 0x38B0DE +display_color: sequence 0xE6E6E6 +display_color: taxonomy 0xFFDCDC +display_color: confidence 0x38B0FF display_color: branch_length 0x8C8C8C display_color: branch 0xFFFFFF display_color: node_box 0xFFFFFF display_color: collapsed 0xFFFF00 -display_color: matching_nodes 0x00FF00 +display_color: matching_a 0x00FF00 +display_color: matching_b 0xFF0000 +display_color: matching_a_and_b 0xFFFF00 display_color: duplication 0xFF0000 display_color: speciation 0x00FF00 display_color: duplication_or_specation 0xFFFF00 diff --git a/forester/aptx/aptx_configuration_files/_aptx_configuration_file_1 b/forester/aptx/aptx_configuration_files/_aptx_configuration_file_1 index 78e0a0c..cc250e3 100644 --- a/forester/aptx/aptx_configuration_files/_aptx_configuration_file_1 +++ b/forester/aptx/aptx_configuration_files/_aptx_configuration_file_1 @@ -134,7 +134,6 @@ show_default_node_shapes_external: no default_node_size: 4 default_node_shape: rectangle default_node_fill: solid -taxonomy_colorize_node_shapes: no #graphics_export_x: 595 #graphics_export_y: 792 pdf_export_line_width: 0.5 @@ -251,7 +250,9 @@ display_color: branch_length 0x8C8C8C display_color: branch 0xFFFFFF display_color: node_box 0xFFFFFF display_color: collapsed 0xFFFF00 -display_color: matching_nodes 0x00FF00 +display_color: matching_a 0x00FF00 +display_color: matching_b 0xFF0000 +display_color: matching_a_and_b 0xFFFF00 display_color: duplication 0xFF0000 display_color: speciation 0x00FF00 display_color: duplication_or_specation 0xFFFF00 -- 1.7.10.2