# Using MRI open datasets from Standford

**URL:** <https://discourse.slicer.org/t/using-mri-open-datasets-from-standford/11543>\
**Category:** Support\
**Created:** [May 14, 2020, 7:59pm UTC](https://discourse.slicer.org/t/using-mri-open-datasets-from-standford/11543 "2020-05-14T19:59:59Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![PameZurita](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/pamezurita/32/6837_2.png) [@PameZurita](https://discourse.slicer.org/u/PameZurita)\
**Post date:** [May 14, 2020, 7:59pm UTC](https://discourse.slicer.org/t/using-mri-open-datasets-from-standford/11543/1 "2020-05-14T19:59:59Z")

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I’m new using 3D Slicer. I’m currently working with MRI in order to segment it and create a socket. I’m working with datasets from Standford ([mridata.org](http://mridata.org)) wich has all their MRI in H5 format.  
When I upload them, it fails and says it “H5Gopen2 failed”.  
How can I fix it?

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**Author:** ![Chris\_Rorden](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/chris_rorden/32/4073_2.png) [@Chris\_Rorden](https://discourse.slicer.org/u/Chris_Rorden)\
**Post date:** [May 15, 2020, 4:35pm UTC](https://discourse.slicer.org/t/using-mri-open-datasets-from-standford/11543/2 "2020-05-15T16:35:27Z")

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You will need to [reconstruct](https://github.com/MRSRL/mridata-recon/) this data into images. This will generate images in [BART](https://github.com/mrirecon/bart) format as described [here](https://mrirecon.github.io/bart/). The format has a simple text header (.hdr) in one file and the 64-bit float (`double` precision) image data in another file (.cfl). I would suggest using your favorite scripting language to generate a [NRRD](http://teem.sourceforge.net/nrrd/format.html) header based on the .hdr file that you can view with Slicer.