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#ifndef _BLASR_HDF_CMP_ROOT_GROUP_HPP_
#define _BLASR_HDF_CMP_ROOT_GROUP_HPP_
#include <alignment/datastructures/alignment/CmpFile.hpp>
#include <hdf/HDF2DArray.hpp>
#include <hdf/HDFAtom.hpp>
template <typename T_Alignment>
class HDFCmpRootGroup
{
public:
HDFGroup rootGroup;
HDFAtom<std::string> version;
HDFAtom<std::string> index;
HDFAtom<std::string> readType;
HDFAtom<std::string> commandLine;
HDF2DArray<std::string> fileLog;
~HDFCmpRootGroup() { rootGroup.Close(); }
int Initialize(H5::H5File &cmpFile)
{
if (rootGroup.Initialize(cmpFile, "/") == 0) {
return 0;
}
if (rootGroup.ContainsObject("Version")) {
if (version.Initialize(rootGroup.group, "Version") == 0) {
return 0;
}
}
if (rootGroup.ContainsObject("Index")) {
if (index.Initialize(rootGroup.group, "Index") == 0) {
return 0;
}
}
if (rootGroup.ContainsObject("ReadType")) {
if (readType.Initialize(rootGroup.group, "ReadType") == 0) {
return 0;
}
}
if (rootGroup.ContainsObject("CommandLine")) {
if (commandLine.Initialize(rootGroup.group, "CommandLine") == 0) {
return 0;
}
}
//
// For now, disable file log initialization until
// hdf2darray<std::string> is tested more thoroughly
//
// if (fileLog.Initialize(rootGroup.group, "FileLog") == 0) {
// return 0;}
//
return 1;
}
void ReadAttributes(CmpFile &cmpFile)
{
if (rootGroup.ContainsObject("Version")) {
version.Read(cmpFile.version);
}
if (rootGroup.ContainsObject("Index")) {
index.Read(cmpFile.index);
}
if (rootGroup.ContainsObject("ReadType")) {
std::string readTypeString;
readType.Read(readTypeString);
cmpFile.StoreReadType(readTypeString);
}
if (rootGroup.ContainsObject("CommandLine")) {
commandLine.Read(cmpFile.commandLine);
}
}
};
#endif
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