Managing CryoSPARC real-time sessions through the CLI, is it possible to have an interface that saves the data of the steps of the motion correction as float16?

CryoSPARC Live
1

According to this link, Managing a CryoSPARC Live Session from the CLI | CryoSPARC Guide

I didn’t find a corresponding interface, is there an interface that allows me to save “motion correction” data as float16?

2

Recent versions of CryoSPARC allow you to select Save results in 16-bit floating point in the Motion Correction and Particle Extraction sections of Parameters.

image
image1920×1873 191 KB

3

What I mean is whether cli provides an interface to turn on this option is similar to the
rtp.set_param(project_uid=project_uid, session_uid=session_uid, param_sec=’ motion_settings’, param_name=‘save_as_float16’, value=1)

4

It does:

rtp.set_param(project_uid=project_uid, session_uid=session_uid, param_sec='motion_settings', param_name='output_f16', value=True)
rtp.set_param(project_uid=project_uid, session_uid=session_uid, param_sec='extraction', param_name='output_f16', value=True)
5

Thank you so much, this helps me a lot!

6

Is there an api to see the current number of Total Exposures and Processed exposures for cryosparc live?

7

@yaohua The commands
cryosparcm rtpcli "get_session_doc('PXX', 'SYY')['stats']['total_exposures']"
cryosparcm rtpcli "get_session_doc('PXX', 'SYY')['stats']['total_ready']"

Where PXX and SYY are the project number and session number will give you the number of total exposures and processed exposures for a real time session.

8

Thank you. That’s very helpful.

9

Do I have the ability to query these APIs

10

@yaohua To run cryosparcm rtpcli commands, one needs shell access on the CryoSPARC master computer under the Linux account that runs the CryoSPARC instance. If cryosparcm is not in that Linux user’s $PATH, one needs to specify the path to the cryosparcm command, for example:

/path/to/cryosparc_master/bin/cryosparcm rtpcli ..