From 15816228d23f9bd7071e579c60bf6a89f705bb71 Mon Sep 17 00:00:00 2001 From: "cmzmasek@gmail.com" Date: Wed, 6 Mar 2013 18:40:34 +0000 Subject: [PATCH] inprogress --- .../_aptx_configuration_file | 31 ++---------------- .../_aptx_configuration_file_1 | 33 ++------------------ 2 files changed, 6 insertions(+), 58 deletions(-) diff --git a/forester/aptx/aptx_configuration_files/_aptx_configuration_file b/forester/aptx/aptx_configuration_files/_aptx_configuration_file index 2cb1e2f..7893b48 100644 --- a/forester/aptx/aptx_configuration_files/_aptx_configuration_file +++ b/forester/aptx/aptx_configuration_files/_aptx_configuration_file @@ -143,9 +143,9 @@ phylogeny_graphics_type: rectangular node_label_direction: horizontal show_default_node_shapes_internal: no show_default_node_shapes_external: no -default_node_size: 6 -default_node_shape: circle -default_node_fill: gradient +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 @@ -284,31 +284,6 @@ domain_structure_font_color: 0x909090 -# Web Links -# --------- -# Format: web_link: -# E.g. "http://www.uniprot.org/uniprot/?query= UniProtKB UniProtKB" -# is not used at the moment. -# corresponds to the element for , -# and to the of (see www.phyloxml.org). - -web_link: http://www.uniprot.org/uniprot/?query= UniProtKB UniProtKB -web_link: http://www.uniprot.org/uniprot/?query= SPTREMBL sptrembl -web_link: http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?cmd=Retrieve&val= NCBI GI -web_link: http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?cmd=Retrieve&val= RefSeq RefSeq -web_link: http://www.ebi.ac.uk/interpro/IEntry?ac= InterPro InterPro -web_link: http://www.rcsb.org/pdb/explore.do?structureId= PDB PDB -web_link: http://pfam.sanger.ac.uk/protein?entry= Pfam pfam -web_link: http://tolweb.org/ ToL tol -web_link: http://www.eol.org/pages/ EOL eol -web_link: http://www.uniprot.org/taxonomy/ UniProt-Taxonomy uniprot -web_link: http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id= NCBI-Taxonomy ncbi -web_link: http://www.ubio.org/browser/details.php?namebankID= uBio namebankID -# not working at the moment: -web_link: http://www.ensembl.org/Homo_sapiens/Search/Summary?species=all;idx=;q= Ensembl Ensembl - - - # Settings Specific for ArchaeopteryxE # ------------------------------------ # To hide controls and menus: 'hide_controls_and_menus: yes' diff --git a/forester/aptx/aptx_configuration_files/_aptx_configuration_file_1 b/forester/aptx/aptx_configuration_files/_aptx_configuration_file_1 index 28b51e0..d70e38b 100644 --- a/forester/aptx/aptx_configuration_files/_aptx_configuration_file_1 +++ b/forester/aptx/aptx_configuration_files/_aptx_configuration_file_1 @@ -127,9 +127,9 @@ phylogeny_graphics_type: rectangular node_label_direction: horizontal show_default_node_shapes_internal: no show_default_node_shapes_external: no -default_node_size: 6 -default_node_shape: circle -default_node_fill: gradient +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 @@ -274,32 +274,6 @@ gui_button_border_color: 0x000000 - -# Web Links -# --------- -# Format: web_link: -# E.g. "http://www.uniprot.org/uniprot/?query= UniProtKB UniProtKB" -# is not used at the moment. -# corresponds to the element for , -# and to the of (see www.phyloxml.org). - -web_link: http://www.uniprot.org/uniprot/?query= UniProtKB UniProtKB -web_link: http://www.uniprot.org/uniprot/?query= SPTREMBL sptrembl -web_link: http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?cmd=Retrieve&val= NCBI GI -web_link: http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?cmd=Retrieve&val= RefSeq RefSeq -web_link: http://www.ebi.ac.uk/interpro/IEntry?ac= InterPro InterPro -web_link: http://www.rcsb.org/pdb/explore.do?structureId= PDB PDB -web_link: http://pfam.sanger.ac.uk/protein?entry= Pfam pfam -web_link: http://tolweb.org/ ToL tol -web_link: http://www.eol.org/pages/ EOL eol -web_link: http://www.uniprot.org/taxonomy/ UniProt-Taxonomy uniprot -web_link: http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id= NCBI-Taxonomy ncbi -web_link: http://www.ubio.org/browser/details.php?namebankID= uBio namebankID -# not working at the moment: -web_link: http://www.ensembl.org/Homo_sapiens/Search/Summary?species=all;idx=;q= Ensembl Ensembl - - - # Settings Specific for ArchaeopteryxE # ------------------------------------ # To hide controls and menus: 'hide_controls_and_menus: yes' @@ -310,7 +284,6 @@ use_tabbed_display: yes - # Application Specific Settings # ----------------------------- -- 1.7.10.2