Replies: 2 comments 2 replies
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Hi @sudeep71 I think it would be worth trying |
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Hi @rpetit3, I had another quick question. I am working with some Leptospira data. Leptospira is kind of complex with many serovars. I am interested in Leptospira interrogans serovar Pomona and Leptospira interrogans serovar Canicola. NCBI has references from both these serovars. Running bactopia datasets --available_datasets i get, "Leptospira interrogans (3 shemas)". How can i make my assemblies be more specific using the --species flag? In other words, does using --species "leptospira-interrogans" distinguish both these serotypes? Thanks, |
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Hi
I am running the pipeline (hybrid flag) using Nanopore and Illumina data. I am running into this problem when I use the hybrid method. I have unicycler independently and it takes a day to run on HPC. Also, there a lot of failures and retries.
Error executing process > 'assemble_genome (canicola)'
Caused by: Process exceeded running time limit (2h)
failures
[53/5f677b] process > assemble_genome (canicola) [100%] 4 of 4, failed: 4, retries: 3 ✘
I have no problems with Illumina only data.
Thanks
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