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phac-nml / mob-suite

MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
Apache License 2.0
125 stars 33 forks source link

run-typer not working #49

Closed Batstaph closed 4 years ago

Batstaph commented 4 years ago

Thank you for your extremely useful software. I have run it on several genomes using mob_recon and --run_typer and successfully generated all the reports. However now the run_typer part seems to have stopped working. The individual reports are not generated, and the aggregated report is generated but only has a header line. It may be coincidence but this started after I ran mob-recon with a for loop and used multiple threads. I have uninstalled and re-installed. I am calling; mob_recon --infile file.fasta --outdir mob_plasmids_file --run_typer Thanks

Batstaph commented 4 years ago

Update to above. Completely fresh install in new conda environment is working so far. I'm not sure how I managed to break the first one.