I would just point out that format conversion requires virtually no CPU resources at all. It is entirely I/O limited, so, on most machines this sort of parallel operation will actually make the conversion take a bit longer, and lead to more disk fragmentation. If you are using SSDs or a RAID of SSDs, then the performance difference should be negligible, but you are still unlikely to see a significant speed boost this way.
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Steven Ludtke, Ph.D. <[log in to unmask]<mailto:[log in to unmask]>> Baylor College of Medicine
Charles C. Bell Jr., Professor of Structural Biology
Dept. of Biochemistry and Molecular Biology (www.bcm.edu/biochem<http://www.bcm.edu/biochem>)
Academic Director, CryoEM Core (cryoem.bcm.edu<http://cryoem.bcm.edu>)
Co-Director CIBR Center (www.bcm.edu/research/cibr<http://www.bcm.edu/research/cibr>)
On Dec 12, 2018, at 12:17 PM, Daniel Asarnow <[log in to unmask]<mailto:[log in to unmask]>> wrote:
***CAUTION:*** This email is not from a BCM Source. Only click links or open attachments you know are safe.
________________________________
I am impatient, and I have many CPUs.
parallel -j 20 e2proc2d.py {} Micrographs/{/.}.mrc ::: Raw/*.hdf
(Using GNU parallel, similar to - but much better than - xargs, available for all Linux distros).
Best,
-da
On Wed, Dec 12, 2018 at 3:36 AM Sonya James <[log in to unmask]<mailto:[log in to unmask]>> wrote:
Hello,
I would like to convert Eman .hdf files to .mrc files. I can use;
e2proc2d.py folder/image.hdf image.mrc
to change one image - can I use it to convert all the images in a folder and what do I need to type (I'm a newbie to all this so need step by step instructions!)?
Thanks
Sonya
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