Devon O'Rourke
Devon O'Rourke
Wonderful - thank you very
Minor follow up Chris - Do you want questions related to Bonito usage posted to this repo, or would you prefer them posted to the Nanopore Community page? I thought...
Very sorry Chris - I'm brand new to GPU use. I think the answer you're asking is a Tesla GPU (I specify that type in my Slurm shell script). If...
Thank you for the advice with the commands @defendant602 , Initially I did manage to get `nvidia-smi` to run properly, but it suggested yet another mistake - it appeared that...
I'm not sure if my files are available to local storage (but I think I did, see below). What would be the best way to determine that? This bit is...
Hi @iiSeymour , I managed to test copying the files to the local `/tmp` directory. The small test batch was processed slightly faster, but not on the order of a...
Hi Chaochih, Any chance Problem 2 was resolved yet from this post? Thanks very much!
Hi Ryan, I've tried a few new things with this one weird sample and have one simple conclusion: I think I had too much Nanopore data. - The (Porechop-trimmed) `original.fastq`...
Thanks for the detailed response Ryan. I've assembled this sample (and others) with: - flye (long reads only) - Unicycler (hybrid and long reads) - masurca - canu Is there...
Thanks for the quick reply. Bummer though! Values are for uncompressed data: - `.paf` is about 80G, - `.fq` reads are about 187G - `.fa` draft reference is just 2G...