Ricardo Righetto

Hi Bill, Apologies for not replying to your earlier requests! This looks like there was some error when extracting the particles. 1) Can you confirm whether there are any files...

Dear Spencer, Thanks for pointing that out! But was it causing you problems? This should be harmless in the current state of FOCUS. There's a field in the GUI Settings...

Just to add to Henning's comment, running MotionCor2 (regardless of the parallelization scheme used) has nothing to do with OpenMPI so that's nothing to worry about. I believe the behavior...

Hi, You need to install the Python module mrcz. In a terminal, type: pip install mrcz (the same procedure can be used to solve other Python dependencies should they arise)...

Hi Andrzej, 1. You need to set the value for "Default_CS" in Preferences >> Microscope. The script is functional but still experimental. It assumes that you have picked particles, extracted...

Hi Andrzej, 1) There was indeed a bug in the script that would prevent it from reading Default_CS and Default_KV in some circunstances. This has been corrected and updated on...

This was done on purpose with the opposite scenario in mind: once good parameters are defined after testing on one image, it is not necessary to manually change the parameters...

Hi Robb, I was not able to reproduce this issue on a machine with the same Ubuntu/gfortran versions: $ gfortran --version GNU Fortran (Ubuntu 5.4.0-6ubuntu1~16.04.4) 5.4.0 2016060 It compiled just...

Thanks for the quick reply @alisterburt! Are there any prospects of making it work for tomography data? ps: why can't I react with a sobbing emoji 😭

Just wanted to note that the second error happens just because we have the prediction command (`ddw refine-tomogram`) in our [script](https://github.com/CellArchLab/cryoet-scripts/blob/cc5f5a912daa5d2f9f51eeee0af5fd656f454005/ddw/ddw_pipeline#L528), so if training fails the checkpoint expected for prediction...