Uses of Class
org.biojava.nbio.core.exceptions.ParserException

Packages that use ParserException

Package	Description
org.biojava.nbio.core.sequence.io
org.biojava.nbio.core.sequence.io.util
org.biojava.nbio.core.sequence.location

Uses of ParserException in org.biojava.nbio.core.sequence.io

Methods in org.biojava.nbio.core.sequence.io that throw ParserException

Modifier and Type	Method and Description
void	GenericGenbankHeaderParser.setAccession(String accession) The last accession passed to this routine will always be the one used.
void	GenericGenbankHeaderParser.setComment(String comment)
void	GenericGenbankHeaderParser.setDescription(String description)
void	GenericGenbankHeaderParser.setIdentifier(String identifier)
void	GenericGenbankHeaderParser.setName(String name)
void	GenericGenbankHeaderParser.setVersion(int version)

Uses of ParserException in org.biojava.nbio.core.sequence.io.util

Methods in org.biojava.nbio.core.sequence.io.util that throw ParserException

Modifier and Type	Method and Description
static List<String>	IOUtils.getList(BufferedReader br) Returns the contents of a buffered reader as a list of strings
static List<String>	IOUtils.getList(File file) Delegates to IOUtils.getList(InputStream) by wrapping the File in a valid stream.
static List<String>	IOUtils.getList(InputStream is) Delegates to IOUtils.getList(BufferedReader) by wrapping the InputStream in a valid reader.
static InputStream	IOUtils.openFile(File file) For a filename this code will check the extension of the file for a .gz extension.
static void	IOUtils.processReader(BufferedReader br, IOUtils.ReaderProcessor processor) Takes in a reader and a processor, reads every line from the given file and then invokes the processor.

Uses of ParserException in org.biojava.nbio.core.sequence.location

Methods in org.biojava.nbio.core.sequence.location that throw ParserException

Modifier and Type	Method and Description
List<AbstractLocation>	InsdcParser.parse(Reader reader) Reader based version of the parse methods.
Location	InsdcParser.parse(String locationString) Main method for parsing a location from a String instance