Bill Andreopoulos

Hi Emery: I think the issue may have to do with the memory requirements of the run_plassketch.sh script. I wonder if you could send me the fasta file you are inputting so I can run it on my side (at least send me a subset of the fasta file so I can try it out). I haven't seen the error before on my side and I would need the input fasta file to replicate it. Apologies, I have moved the repo to github and I need to update this repo to link to github. Thanks! Bill

Hello! Thanks for your question. Are you using the Docker command as shown below? Can you please double-check if your /path/to/input/fasta exists? Did you specify the absolute path (starting with /)? Could you send me the exact command-line perhaps? https://sourceforge.net/p/deeplasmid/wiki/deeplasmid%20Quick%20Start/ docker run -it -v /path/to/input/fasta:/srv/jgi-ml/classifier/dl/in.fasta -v /path/to/output/directory:/srv/jgi-ml/classifier/dl/outdir billandreo/deeplasmid feature_DL_plasmid_predict.sh...

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Thanks for your question. Are you using the Docker command as shown below? Can you please double-check if your /path/to/input/fasta exists? Could you send me the exact command-line perhaps? https://sourceforge.net/p/deeplasmid/wiki/deeplasmid%20Quick%20Start/ docker run -it -v /path/to/input/fasta:/srv/jgi-ml/classifier/dl/in.fasta -v /path/to/output/directory:/srv/jgi-ml/classifier/dl/outdir billandreo/deeplasmid feature_DL_plasmid_predict.sh in.fasta outdir Thanks. Bill

deeplasmid Quick Start

deeplasmid Quick Start

deeplasmid Quick Start