zzh
/
gatk-3.8
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

Better error message when a RodBinding file doesn't exist

This commit is contained in:
Mark DePristo 2011-10-17 13:58:46 -04:00
parent 09a09cacef
commit 4108a294f7
2 changed files with 5 additions and 1 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

2
public/java/src/org/broadinstitute/sting/commandline/ArgumentTypeDescriptor.java
View File

@ -380,7 +380,7 @@ class RodBindingArgumentTypeDescriptor extends ArgumentTypeDescriptor {
if ( tribbleType == null ) if ( tribbleType == null )
if ( ! file.canRead() | ! file.isFile() ) { if ( ! file.canRead() | ! file.isFile() ) {
throw new UserException.BadArgumentValue(name, "Couldn't read file to determine type: " + file); throw new UserException.CouldNotReadInputFile(file, "file does exist or couldn't be read");
} else { } else {
throw new UserException.CommandLineException( throw new UserException.CommandLineException(
String.format("No tribble type was provided on the command line and the type of the file could not be determined dynamically. " + String.format("No tribble type was provided on the command line and the type of the file could not be determined dynamically. " +

4
public/java/src/org/broadinstitute/sting/utils/exceptions/UserException.java
View File

@ -111,6 +111,10 @@ public class UserException extends ReviewedStingException {
super(String.format("Couldn't read file because %s caused by %s", message, e.getMessage())); super(String.format("Couldn't read file because %s caused by %s", message, e.getMessage()));
} }
public CouldNotReadInputFile(File file) {
super(String.format("Couldn't read file %s", file.getAbsolutePath()));
}
public CouldNotReadInputFile(File file, String message) { public CouldNotReadInputFile(File file, String message) {
super(String.format("Couldn't read file %s because %s", file.getAbsolutePath(), message)); super(String.format("Couldn't read file %s because %s", file.getAbsolutePath(), message));
} }