X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Farchaeopteryx%2FAptxConstants.java;h=cb03d46599a56d5608504389b398f46ac635f83d;hb=f4c563596b6968fd343fdab7fa32b54431a17f2e;hp=024e3df8ede2df31a5f4712edae364f7431fa873;hpb=b84e8526477669cdd934fddf2c8d46cba432a2c4;p=jalview.git diff --git a/forester/java/src/org/forester/archaeopteryx/AptxConstants.java b/forester/java/src/org/forester/archaeopteryx/AptxConstants.java index 024e3df..cb03d46 100644 --- a/forester/java/src/org/forester/archaeopteryx/AptxConstants.java +++ b/forester/java/src/org/forester/archaeopteryx/AptxConstants.java @@ -37,11 +37,9 @@ import org.forester.util.ForesterConstants; public final class AptxConstants { final static boolean __ALLOW_PHYLOGENETIC_INFERENCE = true; - public final static boolean __RELEASE = false; // TODO remove me - public final static boolean __SNAPSHOT_RELEASE = false; // TODO remove me public final static String PRG_NAME = "Archaeopteryx"; - final static String VERSION = "0.9912 beta"; - final static String PRG_DATE = "160630"; + final static String VERSION = "0.9916 beta"; + final static String PRG_DATE = "160817"; final static String DEFAULT_CONFIGURATION_FILE_NAME = "_aptx_configuration_file"; final static String[] DEFAULT_FONT_CHOICES = { "Arial Unicode MS", "Dialog", "SansSerif", "Sans", "Arial", "Helvetica" }; @@ -70,6 +68,7 @@ public final class AptxConstants { static final int MAX_TREES_TO_LOAD = 100; final static float PDF_LINE_WIDTH_DEFAULT = 0.5f; final static String APTX_WEB_SITE = "https://sites.google.com/site/cmzmasek/home/software/archaeopteryx"; + final static String APTX_MAILING_LIST = "https://groups.google.com/forum/?fromgroups#!forum/archaeopteryx"; final static String APTX_DOC_SITE = "https://sites.google.com/site/cmzmasek/home/software/archaeopteryx/documentation"; final static String PHYLOXML_WEB_SITE = ForesterConstants.PHYLO_XML_LOCATION; final static String PHYLOXML_REFERENCE_URL = "http://www.biomedcentral.com/1471-2105/10/356/"; @@ -80,7 +79,7 @@ public final class AptxConstants { final static short NUMBER_OF_DIGITS_AFTER_COMMA_FOR_BRANCH_LENGTH_VALUES_DEFAULT = 3; final static short NUMBER_OF_DIGITS_AFTER_COMMA_FOR_CONFIDENCE_VALUES_DEFAULT = 2; public static final boolean NH_PARSING_IGNORE_QUOTES_DEFAULT = false; - static final CLADOGRAM_TYPE CLADOGRAM_TYPE_DEFAULT = CLADOGRAM_TYPE.EXT_NODE_SUM_DEP; + static final CLADOGRAM_TYPE CLADOGRAM_TYPE_DEFAULT = CLADOGRAM_TYPE.LINED_UP; final static boolean VALIDATE_AGAINST_PHYLOXML_XSD_SCJEMA_DEFAULT = true; final static String BACKUP_FILE_SUFFIX = ".BAK"; final static double MIN_NOT_COLLAPSE_DEFAULT = 50; @@ -107,4 +106,5 @@ public final class AptxConstants { 150, 150 ); final static short DEFAULT_NODE_SHAPE_SIZE_DEFAULT = 4; + static final int MAX_LENGTH_FOR_COLLAPSED_NAME = 8; }