void HDFCmpExperimentGroup::AddQVs(const std::vector<UChar> &qualityValues,
const std::string &fieldName, unsigned int *offsetBegin,
unsigned int *offsetEnd)
{
std::vector<UChar> paddedQualityValues = qualityValues;
paddedQualityValues.push_back(0);
HDFArray<UChar> *arrayPtr = NULL;
// This seems to be how we do it
if (fieldName == "DeletionQV") {
arrayPtr = &deletionQV;
} else if (fieldName == "InsertionQV") {
arrayPtr = &insertionQV;
} else if (fieldName == "MergeQV") {
arrayPtr = &mergeQV;
} else if (fieldName == "SubstitutionQV") {
arrayPtr = &substitutionQV;
} else {
assert(false);
}
if (!arrayPtr->isInitialized) arrayPtr->Initialize(experimentGroup, fieldName);
*offsetBegin = arrayPtr->size();
*offsetEnd = arrayPtr->size() + qualityValues.size();
arrayPtr->Write(&paddedQualityValues[0], paddedQualityValues.size());
}
int Initialize(HDFGroup &parentGroup) {
if (movieInfoGroup.Initialize(parentGroup.group, "MovieInfo") == 0) {
return 0;
}
if (idArray.Initialize(movieInfoGroup, "ID") == 0) {
return 0;
}
if (nameArray.Initialize(movieInfoGroup, "Name") == 0) {
return 0;
}
return 1;
}
void StoreFrameRate(int movieIndex, float frameRate) {
if (movieIndex < 0) {
cout << "ERROR. Invalid movie index " << movieIndex << endl;
exit(1);
}
if (!frameRateArray.IsInitialized()) {
if (!movieInfoGroup.ContainsObject("FrameRate")) {
frameRateArray.Create(movieInfoGroup, "FrameRate");
}
else {
frameRateArray.Initialize(movieInfoGroup, "FrameRate");
}
}
frameRateArray.WriteToPos(&frameRate, 1, movieIndex);
}
void HDFCmpExperimentGroup::AddTags(const std::vector<char> &qualityValues,
const std::string &fieldName, unsigned int *offsetBegin,
unsigned int *offsetEnd)
{
std::vector<char> paddedQualityValues = qualityValues;
paddedQualityValues.push_back(0);
HDFArray<char> *arrayPtr = NULL;
if (fieldName == "DeletionTag") {
arrayPtr = &deletionTag;
} else if (fieldName == "SubstitutionTag") {
arrayPtr = &substitutionTag;
} else {
assert(false);
}
if (!arrayPtr->isInitialized) arrayPtr->Initialize(experimentGroup, fieldName);
*offsetBegin = arrayPtr->size();
*offsetEnd = arrayPtr->size() + qualityValues.size();
arrayPtr->Write(&paddedQualityValues[0], paddedQualityValues.size());
}