| Package | Description |
|---|---|
| umich.ms.fileio.filetypes.mzml | |
| umich.ms.fileio.filetypes.mzxml | |
| umich.ms.fileio.filetypes.xmlbased | |
| umich.ms.util.xml |
| Constructor and Description |
|---|
MZMLIndexElement(int num,
int numRaw,
String id,
OffsetLength offlen) |
| Constructor and Description |
|---|
MZXMLIndexElement(int num,
int numRaw,
OffsetLength offlen) |
| Modifier and Type | Field and Description |
|---|---|
protected OffsetLength |
AbstractXMLBasedIndexElement.offlen
The offset and length of scan entry in the XML file.
|
| Modifier and Type | Method and Description |
|---|---|
OffsetLength |
XMLBasedIndexElement.getOffsetLength() |
OffsetLength |
AbstractXMLBasedIndexElement.getOffsetLength() |
| Modifier and Type | Method and Description |
|---|---|
void |
XMLBasedIndexElement.setOffsetLength(OffsetLength offlen)
This mutator is needed to facilitate "fixing" of index after it was created.
|
void |
AbstractXMLBasedIndexElement.setOffsetLength(OffsetLength offlen)
Use carefully, the only intended use for this mutator is to extend the already existing offset-length pairs
if the original length was not extending all the way up to the next "scan" tag.
|
| Modifier and Type | Method and Description |
|---|---|
protected int[] |
AbstractXMLBasedDataSource.distributeParseLoad(int numWorkers,
ArrayList<OffsetLength> readTasks) |
protected byte[] |
AbstractXMLBasedDataSource.readContinuousBatchOfSpectra(Iterator<? extends Map.Entry<Integer,? extends XMLBasedIndexElement>> entries,
RandomAccessFile file,
byte[] readBuf,
ArrayList<OffsetLength> readTasks,
int maxScansToReadInBatch) |
protected ArrayList<Future<List<IScan>>> |
AbstractXMLBasedDataSource.submitParseTasks(LCMSDataSubset subset,
LCMSRunInfo info,
int numWorkers,
ExecutorService exec,
byte[] readBuf1,
ArrayList<OffsetLength> readTasks,
int[] workerScanCounts,
boolean areScansContinuous) |
| Constructor and Description |
|---|
AbstractXMLBasedIndexElement(int num,
int numRaw,
OffsetLength offlen) |
| Modifier and Type | Method and Description |
|---|---|
static OffsetLength |
XmlUtils.locate(String tag1,
TAG_TYPE tag1Type,
POSITION tag1Loc,
String tag2,
TAG_TYPE tag2Type,
POSITION tag2Loc,
long maxOffset,
InputStream is)
Deprecated.
Try using
XmlUtils.locate(List, List, InputStream, long).
This method uses an XML parser internally, so it's 1) slower than the other method
2) it's reporting of locations is in Characters, not Bytes! |
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