public class VariationTranscriptFile extends AbstractVariationFile
Modifier and Type | Field and Description |
---|---|
static String |
PREPROCESSED_TRANSCRIPT_VARIATION_FILENAME |
static String |
TRANSCRIPT_VARIATION_FILENAME |
fileReader, logger, preprocessedFileName, unprocessedFileName, variationDirectory, variationIdColumnIndex
Constructor and Description |
---|
VariationTranscriptFile(Path variationDirectory) |
Modifier and Type | Method and Description |
---|---|
void |
preprocess(VariationFeatureFile variationFeatureFile) |
createBufferedReader, existsZippedOrUnzippedFile, existsZippedOrUnzippedFile, getBufferedReader, getUnprocessedFileBufferedReader, getVariationRelatedLines, gunzip, gzip, isEmpty, sort, sortFileByNumericColumn
public static final String TRANSCRIPT_VARIATION_FILENAME
public static final String PREPROCESSED_TRANSCRIPT_VARIATION_FILENAME
public VariationTranscriptFile(Path variationDirectory)
public void preprocess(VariationFeatureFile variationFeatureFile) throws IOException, InterruptedException
IOException
InterruptedException
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