Hi Barbara and Albert,
thanks for your helpful informations.
I managed to modify/write the desired values to my h5-file with a small
c application. I took the output from h5diff and used H5Dwrite to
overwrite the datasets.
Thanks a lot,
Thomas
On 23.10.2013 19:10, [email protected] wrote:
Hi Thomas,
Could you write a small application that reads the dataset, and writes
out the correct values?
We have a "Learning the Basics" tutorial here,
http://www.hdfgroup.org/HDF5/Tutor/introductory.html
The "Reading From and Writing To a Dataset" topic discusses how to
read and write to a dataset:
http://www.hdfgroup.org/HDF5/Tutor/rdwt.html
We provide example programs in the tutorials, and they can also be found
on this page (including user-contributed Mathematica examples and wrappers):
http://www.hdfgroup.org/HDF5/examples/intro.html
The HDF Group provides the C, Fortran, C++, and Java wrappers. If you need
help installing HDF5 or HDF-Java, I can help with that.
Python requires h5py. See this page for information on that:
http://www.h5py.org/
-Barbara
====================
Barbara Jones
The HDF Helpdesk
The HDF Group
[email protected]
====================
(I Cc our help desk in case there is other information they can offer.)
At the moment, there are two tools, h5view and h5import, that may help your
needs.
You can check to see if they may meet your needs.
Meanwhile, we are looking for funding to add more features to the h5edit tool.
If you know of any possible source, please let us know.
-Albert
On Oct 23, 2013, at 9:26 AM, Thomas Zander wrote:
Hi Albert,
oops, i know about the h5 format no longer than few days. I just wanted to
change the 0.559344 to another value. Can't i use h5edit for this?
In fact this wish comes from another one: I want to have a h5 file which
contains the difference of two other h5 files (the difference of all Fm values
they contain). There are several hundred Fm values in the two h5 files as
reported from h5diff. Their structures are identical. I wanted to use the
output of the h5diff to create a script which changes the Fm values in a copy
of one of the two h5 files with the help of h5edit. The h5 files are from
another software which i can't modify.
Do you know another command line solution for this problem?
Thanks,
Thomas
On 23.10.2013 16:02, Albert Cheng wrote:
Hi Thomas,
I did an h5dump on the file.
I found /Output/Model/HumanModel/Right/Leg/Mus/AdductorBrevisDistal1/Fm as a
dataset,
not as an attribute of a group or a dataset. H5edit currently edits attributes
only.
It does not edit datasets yet.
Did you misunderstand what h5edit does or did I miss attribute "Fm"?
HDF5 "myfile.h5" {
GROUP "/Output/Model/HumanModel/Right/Leg/Mus/AdductorBrevisDistal1" {
…
DATASET "Fm" {
DATATYPE H5T_IEEE_F64LE
DATASPACE SIMPLE { ( 1 ) / ( 1 ) }
DATA {
(0): 0.559344
}
…
On Oct 23, 2013, at 12:49 AM, Thomas Zander wrote:
Hi Albert,
thanks for your reply. I uploaded myfile.h5. In fact the command i used was
meant as example.
More specific it is:
h5edit -c "MODIFY /Output/Model/HumanModel/Right/Leg/Mus/AdductorBrevisDistal1 Fm
{0.111}; " myfile.h5
Hope the file is not too large (35MB).
Thanks,
Thomas
On 22.10.2013 19:46, Albert Cheng wrote:
Thomas,
Is it possible for you to give me a copy of your data file?
You can ftp to
"ftp://ftp.hdfgroup.uiuc.edu/pub/incoming/acheng/";
If it is not available, can you send me the output of h5dump on the data file,
$ h5dump -p -H myfile.h5
Thanks.
-Albert Cheng
THG Staff
On Oct 22, 2013, at 9:47 AM, Thomas Zander wrote
h5edit passed all checks during installation but i don't manage to modify my
own h5 file:
h5edit -c "MODIFY /Output/Model/Fm {1.7};" myfile.h5
results in:
failed to open attribute /Output/Model/Fm
failed to get the definition of old attribute Fm
But i know from hdfview that Fm exists in /Output/Model/
I also can't DELETE /Output/Model.
I ran h5check without errors.
Has somebody an idea about this?
Thanks,
Thomas
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