Electron Microscopy Group

02/10/2016

03:53 PM Appion Bug #3933: ctfdata download on individual run does not have confidence_30_10 and other new style confidence

Hi Anchi,
The individual runs still have all 0's but the 'best ctf data' file has everything I need.
Thanks!
M... Melody Campbell

02/07/2016

02:11 PM Appion Bug #3933: ctfdata download on individual run does not have confidence_30_10 and other new style confidence

Hi,
I checked the old runs and also set up a new run: they all still write out 0's for all the micrographs. The 'b... Melody Campbell

11/12/2015

01:53 PM Appion Bug #3422: Fix magnification in Appion generated FREALIGN par file

Hi Anchi,
When I prepare the par file for a krios/k2 dataset, the actual mag comes out to be: 76336. I think is i... Melody Campbell

10/21/2015

05:57 PM Appion Bug #3422: Fix magnification in Appion generated FREALIGN par file

Is there an advantage to not just using the real dstep value? it seems like these short cuts could cause a lot of con... Melody Campbell

05:06 PM Appion Bug #3422: Fix magnification in Appion generated FREALIGN par file

Hi Anchi,
Sorry I must have missed this email in the chaos of the past few months.
I have never actually used t... Melody Campbell

08/26/2015

07:59 PM Appion Bug #3422: Fix magnification in Appion generated FREALIGN par file

Hi Anchi,
dstep should be card 6. Attached is a screenshot from the first FREALIGN paper that has the first 7 card... Melody Campbell

02:24 PM Appion Bug #3422 (Closed): Fix magnification in Appion generated FREALIGN par file

The FREALIGN par file in appion i think is hardcoded to have a magnification of 10000. It should change based on the ... Melody Campbell

03/24/2015

06:17 PM Appion Bug #3025: MySQL server has gone away

Hi Sargis, I ran the two commands, this is what I get:
home/melody> ls /gpfs/group/em/appion/15mar13a/align/cl2d3-... Melody Campbell

03/23/2015

07:08 PM Appion Bug #3025: MySQL server has gone away

Also, I can't change the status from "In test..." Melody Campbell

07:06 PM Appion Bug #3025: MySQL server has gone away

Hi Sargis,
I now get this error:
!!! WARNING: could not create stack average, average.mrc
... Inserting CL2D Ru... Melody Campbell