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LBEM-CH / focus

High Throughput Electron Microscopy Image Processing Software
http://www.focus-em.org
GNU General Public License v2.0
35 stars 14 forks source link

Minor problems with exported Micrographs_all_defocus.star #232

Closed andreymalg closed 6 years ago

andreymalg commented 6 years ago

Hello,

Here are 2 small issues I've run into with the exported micrographs_all_defocus.star in Relion2. 1) My installation of Relion 2.1 does not recognize "_rlnTotalDose" 2) When trying to display CTFs in Relion, this error pops up: "Invalid Spider file: ctfinfo/Imagename.ctf "

Both can be readily addressed with awk and vim. 1) Using awk to print out the first 13 columns 2) vim to change ctfinfo/Imagename.ctf to ctfinfo/Imagename.ctf:mrc

I am curious if I need to address some issues with my installations of Relion, gCTF, and Focus or is this intended behavior? The output for individual images during processing (with gCTF) contains ".ctf:mrc", but not in the joined exported star file. Is that intentional?

Thank you

rdrighetto commented 6 years ago

Dear Andrey,

Thanks for reporting this bug. I will fix them and let you know when it's done.

rdrighetto commented 6 years ago

The bugs should be fixed now. Please feel free to reopen this issue if you still encounter these problems with micrographs_all_defocus.star.