public void testgetMsmsRunSummay() {
pepXMLUnmarshaller um = new pepXMLUnmarshaller(pepXMLFile);
Set<String> msms_run_summaryName = um.getMsmsRunsummaryIDs();
if (logger.isDebugEnabled()) {
logger.debug("MsmsRunSummary basename: " + msms_run_summaryName);
}
try {
MsmsRunSummary runsummary =
um.getMsmsRunsummaryById(
"/regis/sbeams/archive/wyan/HIVHuCell/HIV_S100/HsIPI_v3.21plus/hivs100_14_1");
assertEquals("ThermoFinnigan", runsummary.getMsManufacturer());
} catch (pepXMLUnmarshallerException ex) {
ex.printStackTrace();
}
}
public void testgetSearchSummarybyID() {
// assertTrue(isValidpepXML(pepXMLFile));
pepXMLUnmarshaller um = new pepXMLUnmarshaller(pepXMLFile);
try {
SearchSummary searchsummary =
um.getSearchSummaryById(
"/regis/sbeams/archive/wyan/HIVHuCell/HIV_S100/HsIPI_v3.21plus/hivs100_17_2");
String databaseLocalpath = searchsummary.getSearchDatabase().getLocalPath();
assertEquals("/dbase/users/sbeams/ipi.HUMAN.v3.21plus.fasta", databaseLocalpath);
String enzyme = searchsummary.getEnzymaticSearchConstraint().getEnzyme();
assertEquals("Trypsin", enzyme);
String searchengine = searchsummary.getSearchEngine().value();
assertEquals("SEQUEST", searchengine);
} catch (pepXMLUnmarshallerException ex) {
ex.printStackTrace();
}
}