\r
import java.util.*;\r
\r
-import java.net.*;\r
import org.apache.log4j.Logger;\r
import org.apache.log4j.SimpleLayout;\r
import org.apache.log4j.Level;\r
jalview.bin.Cache.log.setLevel(Level.toLevel(Cache.getDefault(\r
"logs.Jalview.level",\r
Level.INFO.toString())));\r
-\r
ConsoleAppender ap = new ConsoleAppender(new SimpleLayout(),\r
"System.err");\r
ap.setName("JalviewLogger");\r
laxis.addAppender(ap);\r
lcastor.addAppender(ap);\r
jalview.bin.Cache.log.addAppender(ap);\r
+ // Tell the user that debug is enabled\r
+ jalview.bin.Cache.log.debug("Jalview Debugging Output Follows.");\r
}\r
catch (Exception ex)\r
{\r
\r
//LOAD USERDEFINED COLOURS\r
jalview.gui.UserDefinedColours.initUserColourSchemes( getProperty("USER_DEFINED_COLOURS"));\r
+ jalview.io.PIRFile.useModellerOutput = Cache.getDefault("PIR_MODELLER", false);\r
}\r
\r
\r