e2refine_easy failure

[Grigory Sharov]

Hi,

another error  I have encountered in master branch at e2classaverage step inside e2refine_easy command:

EMAN 2.99 ( GITHUB: 2022-06-06 14:12 - commit: e723e0b87c0311573db38982dc3f8b4bfe5312b1 )
Your EMAN2 is running on: Linux-5.17.0-1-amd64-x86_64-with-glibc2.33 5.17.0-1-amd64
Your Python version is: 3.9.13

I'm getting "Error: the specified Comparitor (frc:snrweight=1) does not exist or cannot be constructed"

Full command:
e2refine_easy.py   --input=sets/inputSet__ctf_flip.lst --model=ref_vol.hdf --targetres=25.000000 --speed=7 --sym=d6  --iter=1 --mass=500.000000  --apix=3.500000 --classkeep=0.900000 --m3dkeep=0.800000 --parallel=thread:4 --threads=4 --ampcorrect=auto

Looking at "e2help.py cmps frc" output I see that snrweight comparator seems to be gone.

Best regards,
Grigory

--------------------------------------------------------------------------------

Grigory Sharov, Ph.D.

MRC Laboratory of Molecular Biology,
Francis Crick Avenue,
Cambridge Biomedical Campus,
Cambridge CB2 0QH, UK.
tel. +44 (0) 1223 267228

e-mail: gsh...@mrc-lmb.cam.ac.uk

[Steve Ludtke]

Ouch!  You are absolutely correct. This was a mistake when adding a new comparator. The code implementing a number of options wasn't removed, but the option names (which aren't in the experimental new comparator) were accidentally removed from both. I reverted this change. Hopefully ok again now!

--------------------------------------------------------------------------------------

Steven Ludtke, Ph.D. <slu...@bcm.edu>                      Baylor College of Medicine

Charles C. Bell Jr., Professor of Structural Biology        Dept. of Biochemistry 

Deputy Director, Advanced Technical Cores                   and Molecular Biology

Academic Director, CryoEM Core

Co-Director CIBR Center

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[Grigory Sharov]

Hello Steve,

I guess the error has been fixed in the github repo, but does eman2_sphire_sparx.linux.unstable.sh ever get updated?

I see the same error there..

Best regards,
Grigory

--------------------------------------------------------------------------------

Grigory Sharov, Ph.D.

MRC Laboratory of Molecular Biology,
Francis Crick Avenue,
Cambridge Biomedical Campus,
Cambridge CB2 0QH, UK.
tel. +44 (0) 1223 267228

e-mail: gsh...@mrc-lmb.cam.ac.uk

To view this discussion on the web visit https://groups.google.com/d/msgid/eman2/E8A81915-DAA2-44DE-AEAF-3CC3CC16A860%40gmail.com.