I've been trying to solve the issue, and the problem seems to be in the
library itself.
The error is still occurring in the H5G.getObjectNameByIndex() call.
I thought it might be an issue with the recursion keeping to many handles
open, so I moved the H5F.open() and H5G.open() for the group inside the
function and close them before I recurse down.
So the flow for the program is now
For all files
getGroups()
saveCSV()
End
getGroups()
public void getGroups(StreamWriter sw)
{
//open the HDF5 library
int x = H5.Open();
//open the file
H5FileId gh5file = H5F.open(fname, H5F.OpenMode.ACC_RDONLY);
//read in the root group
H5GroupId rootGroup = H5G.open(gh5file, "/");
//find out how many objects are under the root group
long count = H5G.getNumObjects(rootGroup);
//store the names at this level
ObjectInfo info = H5G.getObjectInfo(rootGroup, "/DYNAMIC DATA"
, false);
groups.Add(new Group("/DYNAMIC DATA", info.objectType));
H5G.close(rootGroup);
H5F.close(gh5file);
//find all children of roots children recursively
for (int i = 0; i < groups.Count; i++)
{
findChildren(groups[i], fname, sw);
}
H5.Close();
}
public static void findChildren(Group s, string fname, StreamWriter sw)
{
try
{
//Get the number of children that belong to current group
H5FileId gh5file = H5F.open(fname, H5F.OpenMode
.ACC_RDONLY);
H5GroupId curr_group = H5G.open(gh5file, s.name);
long count = H5G.getNumObjects(curr_group);
//for each of the children add them to the parent list
for (ulong j = 0; j < (ulong)count; j++)
{
//read it by index
string obj_name = H5G.getObjectNameByIndex(curr_group,
j);
ObjectInfo info = H5G.getObjectInfo(curr_group,
obj_name, false);
s.children.Add(new Group(s.name + "/" + obj_name,
info.objectType));
}
H5G.close(curr_group);
H5F.close(gh5file);
}
catch (Exception ex)
{
sw.WriteLine("FindChildren Error: {0}", ex.Message);
sw.WriteLine("CurrGroup: {0}", s.name);
throw ex;
}
//For each child we are going to recurse down
for (int i = 0; i < s.children.Count; i++)
{
//in the GH5 file format there is nothing below dataset
//if it is not a dataset, recurse on its children
if (s.children[i].type != H5GType.DATASET)
{
findChildren(s.children[i], fname, sw);
}
else //it is a dataset so log the enformation
{
H5FileId gh5file2 = H5F.open(fname, H5F.OpenMode
.ACC_RDONLY);
s.children[i].dsetID = H5D.open(gh5file2,
s.children[i].name);
H5DataTypeId dID = H5D.getType(s.children[i].dsetID);
s.children[i].dtypeID = dID;
s.children[i].dtype = H5T.getClass(dID);
s.children[i].dtype_size = H5T.getSize(dID);
s.children[i].numPoints = H5S.getSimpleExtentNPoints(
H5D.getSpace(s.children[i].dsetID));
s.children[i].order = H5T.get_order(dID);
s.children[i].unit = Helpers
.ReadAttributeString(s.children[i].dsetID, s.children[i].name, "UNITS");
H5D.close(s.children[i].dsetID);
H5F.close(gh5file2);
}
}
//H5G.close(curr_group);
}
So these changes should reduce any handles that are open at any one time. _______________________________________________
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