compbio.runner
Class Util
java.lang.Object
compbio.runner.Util
public final class Util
- extends Object
Constructor Summary |
Util()
|
log
public static org.apache.log4j.Logger log
SPACE
public static final String SPACE
- See Also:
- Constant Field Values
Util
public Util()
getSupportedOptions
public static <T> RunnerConfig<T> getSupportedOptions(Class<? extends Executable<T>> clazz)
getPresets
public static <T> PresetManager<T> getPresets(Class<? extends Executable<T>> clazz)
readClustalFile
public static final Alignment readClustalFile(String workDirectory,
String clustFile)
throws UnknownFileFormatException,
IOException,
FileNotFoundException,
NullPointerException
- Throws:
UnknownFileFormatException
IOException
FileNotFoundException
NullPointerException
readJronnFile
public static final Map<String,Score> readJronnFile(String workDirectory,
String clustFile)
throws UnknownFileFormatException,
IOException,
FileNotFoundException,
NullPointerException
- Throws:
UnknownFileFormatException
IOException
FileNotFoundException
NullPointerException
writeInput
public static void writeInput(List<FastaSequence> sequences,
ConfiguredExecutable<?> exec)
throws JobSubmissionException
- Throws:
JobSubmissionException