I am using canu 1.7 for assembling a genome of ~1.4gb size with ~70X pacbio data.
canu -p canu -d canu-pacbio useGrid=false maxThreads=60 maxMemory=500 genomeSize=1.4g -pacbio-raw file1 ....
I have the following queries:
- What would be the expected runtime? I have few nodes with 1tb RAM and >100 cores (ofcourse there are other users also). For now I run on single node specifying the options above.
- How much disk space can I expect it to occupy?
- I have not run this using the grid option, as I am not sure how much load this would put on the headnode, I use PBS. Any advise for this?
- Are there any other recommended parameters which I should change for my setup?
Thanks :)
I am using canu 1.7 for assembling a genome of ~1.4gb size with ~70X pacbio data.
canu -p canu -d canu-pacbio useGrid=false maxThreads=60 maxMemory=500 genomeSize=1.4g -pacbio-raw file1 ....
I have the following queries:
Thanks :)