Question about frames and leginon folders
Added by Patrick Goetz over 4 years ago
Hi -
When I look at our data collection areas, I see 2 folders: frames and leginon:
root@kraken:/EM/mclellanlab# ls frames leginon
Each of these contains image set folders:
root@kraken:/EM/mclellanlab# ls frames 18dec03a 18nov05a 19feb05a 19jul01a 19jun10a 19oct02a 19sep23b 20jun18b 18dec05a 18nov08a 19feb06a 19jul30a 19jun17a 19oct03a 20feb17a 20jun19a 18dec10b 18nov15a 19jan11a 19jun03a 19mar21a 19oct09a 20jan30a 20mar02a 18dec14a 19apr15a 19jan15a 19jun04a 19mar26a 19oct21a 20jun15a 20mar05a 18dec17a 19dec15a 19jan23a 19jun05a 19may10a 19oct23a 20jun16b 20mar13a 18dec20a 19feb04a 19jan25a 19jun07a 19may13a 19oct25a 20jun18a 20may23-NCI root@kraken:/EM/mclellanlab# ls leginon 18dec03a 18oct19a 19feb05a 19jul30a 19jun07a 19oct02a 20jan30a 20mar05a 18dec05a 18oct19b 19feb06a 19jul30_ref_a 19jun08b 19oct03a 20jun15a 20mar13a 18dec10b 18oct19_ref_a 19feb25b 19jun03a 19jun10a 19oct09a 20jun15_ref_a 18dec14a 19apr15a 19jan11a 19jun03b 19jun17a 19oct21a 20jun16b 18dec17a 19apr15_ref_a 19jan15a 19jun03c 19mar20a 19oct23a 20jun18a 18dec20a 19dec15a 19jan23a 19jun03d 19mar25a 19oct25a 20jun18b 18nov05a 19dec15b 19jan23_ref_a 19jun03e 19mar26a 19sep23a 20jun19a 18nov08a 19dec15_ref_a 19jan25a 19jun04a 19may10a 19sep23b 20mar02a 18nov15a 19feb04a 19jul01a 19jun05a 19may13a 20feb17a 20mar04a
and each of these image set folders contains a rawdata folder containing .mrc image files.
root@kraken:/EM/mclellanlab# ls frames/20jan30a/ rawdata root@kraken:/EM/mclellanlab# ls leginon/20jan30a/ rawdata remote
Since we work out of the frames folder, and never do anything with the contents of the leginon folder, I'm wondering what is the purpose of the leginon folder?
Replies (3)
RE: Question about frames and leginon folders - Added by Anchi Cheng over 4 years ago
During the data collection, leginon folder images are the ones used for target finding, image processing in the program, not the frames. They are also used to display the images in the web viewer during and after the sessions. If appion is used to do motion correction and ctf estimation. Those ctf estimation input of the aligned images also came from there.
RE: Question about frames and leginon folders - Added by Patrick Goetz over 4 years ago
Thanks. We've been running out of space and are looking to get rid of image sets that aren't needed any more and didn't make their way into a paper (those are archived). So it looks like if I delete an image set from the frames folder I then also need to delete it from the leginon folder.
RE: Question about frames and leginon folders - Added by Anchi Cheng over 4 years ago
Yes, you can do that. If appion process are done, you can also delete them. If you have been running imcache, there will be jpg images that people can view. If you have not used imcahe, it is hard to backfill them, though, because it wants to do all of them.