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Update the out of space error to include another permutation

This commit is contained in:
Eric Banks 2012-10-12 09:38:12 -04:00
parent 85525d9e6e
commit fa77a83783
1 changed files with 5 additions and 2 deletions
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7
public/java/src/org/broadinstitute/sting/gatk/CommandLineGATK.java
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@ -114,6 +114,9 @@ public class CommandLineGATK extends CommandLineExecutable {
public static final String PICARD_TEXT_SAM_FILE_ERROR_1 = "Cannot use index file with textual SAM file";
public static final String PICARD_TEXT_SAM_FILE_ERROR_2 = "Cannot retrieve file pointers within SAM text files";
public static final String NO_SPACE_LEFT_ON_DEVICE_ERROR = "No space left on device";
public static final String DISK_QUOTA_EXCEEDED_ERROR = "Disk quota exceeded";
private static void checkForMaskedUserErrors(final Throwable t) {
final String message = t.getMessage();
if ( message == null )
@ -133,9 +136,9 @@ public class CommandLineGATK extends CommandLineExecutable {
exitSystemWithUserError(new UserException(t.getCause() == null ? message : t.getCause().getMessage()));
// disk is full
if ( message.contains("No space left on device") )
if ( message.contains(NO_SPACE_LEFT_ON_DEVICE_ERROR) || message.contains(DISK_QUOTA_EXCEEDED_ERROR) )
exitSystemWithUserError(new UserException.NoSpaceOnDevice());
if ( t.getCause() != null && t.getCause().getMessage().contains("No space left on device") )
if ( t.getCause() != null && (t.getCause().getMessage().contains(NO_SPACE_LEFT_ON_DEVICE_ERROR) || t.getCause().getMessage().contains(DISK_QUOTA_EXCEEDED_ERROR)) )
exitSystemWithUserError(new UserException.NoSpaceOnDevice());
// masked out of memory error