private void handleResult(CaArrayFileSet fileSet, ValidationResult result) {
for (final String fileName : result.getFileNames()) {
final CaArrayFile caArrayFile = fileSet.getFile(fileName);
final FileValidationResult fileResult = result.getFileValidationResult(fileName);
if (!fileResult.isValid()) {
caArrayFile.setFileStatus(FileStatus.VALIDATION_ERRORS);
} else {
caArrayFile.setFileStatus(FileStatus.VALIDATED);
}
caArrayFile.setValidationResult(fileResult);
this.projectDao.save(caArrayFile);
}
}
private void saveErrorMessages(
FileValidationResult fileValidationResult, CaArrayFile caArrayFile) {
final FileValidationResult newResult = new FileValidationResult();
for (final ValidationMessage vm : fileValidationResult.getMessages()) {
if (vm.getType().equals(Type.ERROR)
&& !Pattern.matches(".*Array Data.*not found in the document set.*", vm.getMessage())) {
newResult.addMessage(Type.ERROR, vm.getMessage());
}
}
if (newResult.getMessages().size() > 0) {
caArrayFile.setFileStatus(FileStatus.VALIDATION_ERRORS);
caArrayFile.setValidationResult(newResult);
this.projectDao.save(caArrayFile);
}
}
private void addInputFile(MageTabFileSet inputFileSet, CaArrayFile caArrayFile) {
final FileType type = caArrayFile.getFileType();
final FileRef fileRef = new CaArrayFileRef(caArrayFile, this.dataStorageFacade);
if (FileTypeRegistry.MAGE_TAB_IDF.equals(type)) {
inputFileSet.addIdf(fileRef);
} else if (FileTypeRegistry.MAGE_TAB_SDRF.equals(type)) {
inputFileSet.addSdrf(fileRef);
} else if (type.isDataMatrix()) {
inputFileSet.addDataMatrix(fileRef);
} else {
inputFileSet.addNativeData(fileRef);
}
}
private boolean isMageTabFile(CaArrayFile file) {
return FileCategory.MAGE_TAB == file.getFileType().getCategory();
}
