Copy SpatialImage into HDF5

[alexsavio]

Hello,

I've implemented functions to copy a Nifti1Image into an HDF5 file group with h5py. The idea is to be able to have a whole dataset inside an HDF5 file.
Would this be a contribution of interest in the context of nibabel?
If yes, I could also implement the method for the rest of image formats.

Thank you very much.

My kind regards,
Alex

[matthew-brett]

Thanks a lot - yes - that does sound interesting

Did you already check out the MINC2 format? Would write access for
MINC2 help for your case?

[alexsavio]

Hi,

Great! Currently I have the implementation for Nifti1Image and Nifti1Header
because it is what I use most.
I haven't checked the MINC2 case, I only know its a specification of HDF5.

Where do you feel is the most suitable place to put the implementation I
already have?
Then you can see if I should make any improvement and after that I'll start
with the other formats, if you agree.

Thanks.

Cheers,
Alex

Alexandre Manhães Savio [email protected]
Grupo de Inteligencia Computacional http://www.ehu.es/ccwintco
Departamento de CCIA
UPV/EHU

On 23 November 2013 22:27, Matthew Brett [email protected] wrote:

Thanks a lot - yes - that does sound interesting

Did you already check out the MINC2 format? Would write access for
MINC2 help for your case?

—
Reply to this email directly or view it on GitHubhttps://github.com//issues/214#issuecomment-29142025
.

[matthew-brett]

Hmm - well - why not put what you have into a branch - without trying
to integrate it - and make a pull request with WIP in the title - work
in progress. I will try and take a look - probably in a couple of
days I'm afraid - I'm in Cuba on a very slow and internittent
connection.

MINC2 is an HDF5 image format - yes - but maybe we could save Nifti1
images as MINC2 and then load them in nibabel - saving them to Nifti1
files as necessary.

I don't think MINC2 files allow more than one image though.

[alexsavio]

Hi,

Ok. I'm not in a hurry, just found to be working on this lately.
I've just pulled a request: #215

I created a new file: hdfloadsave.py because you asked me to not integrate it.

Cheers,
Alex

[matthew-brett]

Thanks - sorry - I am in Cuba with very little internet - will try to
have a look and get back to you soon.

[alexsavio]

Hi,
Thanks for the message. No problem, I'll wait.