CryoSparc Merlin scripts
This repository collects cryosparc 'lanes' suitable for running jobs at PSI.
Lanes
- merlin6. Default lane. 7 day time limit, uses all resources.
- merlin6-big. Requests exclusive node usage, with full memory. If GPUs are needed, requests 4 GPUs with 11GB of video memory
- merlin6-short. Short requests. 1 hour time limit.
Installing
This repo can be cloned using git on merlin. Typically this is done from your
cryosparc install directory (/data/user/<user>/cryosparc/), although this
isn't required.`
git clone /data/project/bio/software/cryoSPARC/v2/config
Next, all cluster_info.json scripts need to be modified to include the correct
worker path by replacing USERNAME.
Finally, connect the newly modified scripts to cryosparc. This should be done on same machine cryosparc runs on. To connect all lanes:
./connect_all.sh
Alternately, you can install individual lanes manually:
cd <lane>
cryosparcm cluster connect
Updating
Scripts are updated regularly with features and bug fixes. To get the newest version, update git:
git pull
Then, connect the lanes to your cryosparc cluster as in installation:
./connect_all.sh