General

Profile

Oliver Clarke

  • Login: olibclarke
  • Email: olibclarke@gmail.com
  • Institution: Columbia University
  • Software Key Date: 07/26/2016
  • Registered on: 05/24/2017
  • Last connection: 07/07/2019

Issues

open closed Total
Assigned issues 0 4 4
Reported issues 9 6 15

Projects

Project Roles Registered on
Appion Reporter 09/25/2018
Leginon Reporter 09/25/2018

Activity

07/07/2019

06:23 PM Leginon Bug #7750 (New): Nominal defocus does not show nominal defocus [myamiweb]
Hi Anchi,
The defocus shown in e.g. enn and enn-a in myamiweb used to be the nominal defocus - the defocus set by ...
Oliver Clarke

04/14/2019

03:26 PM Leginon Bug #7219: Expected beam tilt star file for RELION 3 only contains expected beam tilts for mics that have completed CTF estimation
I note that the raw image shift data is available in the Summary tab, but there is no info on which line corresponds ... Oliver Clarke
03:22 PM Leginon Bug #7219 (New): Expected beam tilt star file for RELION 3 only contains expected beam tilts for mics that have completed CTF estimation
Hi,
The "star file with expected beam tilts for RELION 3" is very helpful, as it allows one to create beam tilt gr...
Oliver Clarke

03/10/2019

02:36 PM Leginon Feature #5978: Display Holefinder ice thickness in image viewer?
Hi Bill,
They are noisy, I agree, but I find it helpful to see the individual values in addition to the graph, bec...
Oliver Clarke

09/27/2018

10:45 AM Leginon Feature #6035: Write out rlnBeamTiltGroupName column in star file for RELION 3 beam tilt refinement? [Feature Request]
Hi Anchi,
That would definitely be better and I will request it - however I would note that splitting the data int...
Oliver Clarke

09/20/2018

11:08 AM Leginon Feature #6035 (Assigned): Write out rlnBeamTiltGroupName column in star file for RELION 3 beam tilt refinement? [Feature Request]
Hi Anchi,
Relion 3 now supports refining multiple beam tilt groups in a single star file (see: https://bitbucket.o...
Oliver Clarke

09/13/2018

10:01 AM Leginon Feature #5927: Archive data as LZW TIFF rather than mrc.bz2?
Oh well that's great then! If direct collection in TIF format will be available that totally obviates the need for th... Oliver Clarke
09:13 AM Leginon Feature #5927: Archive data as LZW TIFF rather than mrc.bz2?
Hi Anchi,
Yes, relion takes mrc stacks, but it does not take mrc.bz2, whereas it can process tiffs directly. Stori...
Oliver Clarke

08/31/2018

10:41 AM Leginon Feature #5978 (Won't Fix or Won't Do ): Display Holefinder ice thickness in image viewer?
Hi Anchi,
Having the plot of Holefinder ice thickness vs ALS ice thickness in the summary page is really helpful! ...
Oliver Clarke

08/05/2018

01:55 PM Leginon Feature #5927: Archive data as LZW TIFF rather than mrc.bz2?
Meant to note - this would also be really helpful during data collection for use with Relion's new on-the-fly auto-pr... Oliver Clarke

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