Michael Roach
Michael Roach
I think I misread the error message. It looked like it was finishing normally but there was an error message for `line 2731 thread_num not defined`. It wasn't happening for...
Thanks, I'll try this fork. Should this fork be used in the future or will the HIT-ImmunologyLab repo be updated? So I finished rerunning my tests and only one genome...
Sorry for the late response here, I've only just had some time to revisit this project. The strand information is available in genbank files. 5' to 3' gene: ``` gene...
Hi, I'll be releasing 1.3.1 soon which should have all the kinks worked out. Unfortunately snakemake v8 broke some things, and python 3.12 broke f-strings in snakemake. the cluster commands...
All good, let me know how it goes.
Hecatomb's HPC support is via snakemake profiles. You can submit the main hecatomb job with 1 thread and pass your profile to the hecatomb command. The main job will submit...
Thanks, I'll look into it.
If your bigtable is empty then the contigSeqTable will be all NA as it joins the seq annotations with the contigs. I think I've fixed, it was caused the formatting...
oh that's fine, i'm pretty sure i've worked out the issues. I'm just waiting on new releases for koverage and trimnami before i can push the next version of hecatomb.
This might be a simple fix. Can you please try and update the `combined_output/hecatomb.config.yaml` file? I think you just need to add a config setting: ```diff hecatomb: args: + assembly:...