[khyatiC]

I am running the script on cluster itself. It has 1TB Ram and 64 cores of which 58 are provided for masurca to run.
How to restart from step "Creating k-unitigs with k=70" ? I am not sure how to do that.

Thanks.

[sklages]

Still you need to check how much RAM your 58 threads consume on your machine.
Check if IO bandwidth is sufficient; are you the only one reading from / writing to the filesystem with your job?

Restarting is described in http://www.genome.umd.edu/docs/MaSuR...StartGuide.pdf -- "Restarting failed assembly".

[khyatiC]

Yes, I am the only one reading from / writing to the file system with this job. I have re-ran the assembly with Creating k-unitigs with k=70 step. Lets see.

Thanks.

[khyatiC]

Hi sklages,

Is there any parameter to define how much memory the process can take or how much memory we want to allot for Masurca? Since I think as you mentioned before also, the error is regarding memory.

Thanks.