H5F.close(fid) flush was delayed, and cause problem when calling h5create afterwards

Hi, I am using low-level H5 commands to create a h5 file and do something on it, then close it. Then I use h5 high-level function h5create to create/write some numeric data into the file.

If I wrap all the codes into a single function, error take place when call h5create. I noticed that the file size is 0, thus not flushed immediately.

If I take the h5create out, and call the function 1st, the file is flushed as expected, and then call h5create with no problem.

If I run all the code in script but not wapped into function, the same error take place: the flushed still failed.

Thus it seems that the low-level codes need to be wrapped into a function to enable immediately flush and enable subsequent high-level function calling. Is there a way to enable the successive call of low-level and high-level command inside a single function? What code should I add in between to force the flush into disk? I tried "pause(5)" but it did not work.

Thanks.

%% Script-failed

afn = 'GSE51.h5';

fid = H5F.create(afn);

gid = H5G.open(fid,'/');

plist = 'H5P_DEFAULT';

gid = H5G.create(gid,'/group1',plist,plist,plist);

H5F.close(fid)

h5create(afn,['/matrix'],[Inf,Inf],'ChunkSize',[8,8],'Deflate',1);

Error using h5create>validate_options (line 133)

'GSE5.h5' is not an HDF5 file.

Error in h5create (line 67)

options = validate_options(p.Results);

%% function-failed

function test1_failed

afn = 'GSE52.h5';

fid = H5F.create(afn);

gid = H5G.open(fid,'/');

plist = 'H5P_DEFAULT';

gid = H5G.create(gid,'/group1',plist,plist,plist);

H5F.close(fid);pause(5);% pause not work

h5create(afn,['/matrix'],[Inf,Inf],'ChunkSize',[8,8],'Deflate',1);

end

test1_failed;

Error using h5create>validate_options (line 133)

'GSE52.h5' is not an HDF5 file.

Error in h5create (line 67)

options = validate_options(p.Results);

%% split, ok

function test2_then_call_succeed

afn = 'GSE53.h5';

fid = H5F.create(afn);

gid = H5G.open(fid,'/');

plist = 'H5P_DEFAULT';

gid = H5G.create(gid,'/group1',plist,plist,plist);

H5F.close(fid)

end

% move out the high-level function, ok

test2_then_call_succeed;

h5create(afn,['/matrix'],[Inf,Inf],'ChunkSize',[8,8],'Deflate',1);

[raym]

solved by

H5F.flush(fid,'H5F_SCOPE_GLOBAL')
H5F.close(fid)

Answer 1

[raym]

solved by

H5F.flush(fid,'H5F_SCOPE_GLOBAL')
H5F.close(fid)