net.sf.basedb.util.basefile
Interface BaseFileSectionParser

All Known Implementing Classes:

FirstPassSectionSpotsParser, SecondPassSectionSpotsParser, SectionAssaysParser, SectionReporterListParser

public interface BaseFileSectionParser

A section parser is responsible for parsing and collecting data that is found in a section in a serial or matrix BASEfile. A section parser should check for user abort by calling BaseFileParser.checkInterrupted() at regular intervals. The parser should also update progress by calling BaseFileParser.setProgress(long, String). Note that progress should be reported as the number of bytes parsed, which can simply can be retreived by calling FlatFileParser.getParsedBytes().

Version:

2.14

Author:

Nicklas

Last modified

$Date: 2009-09-10 14:36:54 +0200 (Thu, 10 Sep 2009) $

Method Summary

void	parseSection(BaseFileParser parser, FlatFileParser ffp) Parse the current section.

Method Detail

parseSection

void parseSection(BaseFileParser parser,
                  FlatFileParser ffp)
                  throws IOException

Parse the current section. The current parse position is right after the section marker. If the section contains headers the FlatFileParser.parseHeaders() must be called. Use FlatFileParser.nextData() to parse data lines.

Parameters:

parser - The master BASEfile parser (can be used for reporting progress, checking for interrupts, etc.)

ffp - The actual file parser, use this to get the data

Throws:

IOException - If there is a problem reading the data