[ome-devel] Reading HDF files from IMOD and (EMAN2 and chimera)

[David Mastronarde]

Hi,

Following up on my correspondence with Jason about HDF files produced by 
IMOD, there are examples the BioFormats does not read fully or correctly 
here:

http://bio3d.colorado.edu/private/bernard

ivem1M-sec.hdf is a stack of images, which is what IMOD makes by default 
when making an HDF file
BioFormats reads only the first image

ivem1M-chunk.hdf is a 3D volume that happens to have data in chunks
ivem1M-pyr.hdf is an image pyramid with 3 volumes in it

chimer.hdf is a volume produced by chimera

eman2.hdf is a small stack of images from older EMAN2
mask.hdf is a volume from contemporary EMAN2
m4160_ptcls.hdf is a stack of images from contemporary EMAN2

All these other things give exceptions.

David