Error when mash distance is 1

phac-nml / sistr_cmd

SISTR (Salmonella In Silico Typing Resource) command-line tool

Apache License 2.0

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Error when mash distance is 1 #36

Closed Piplopp closed 5 years ago

Piplopp commented 5 years ago

Hello !

I'm trying to use sistr on various scaffolds from Salmonella WGS assemblies, however I stumbled upon this error.

IndexError: list index out of range

After looking on it it appears that this happens when you submit a sequence that results in a mash distance equals to 1. I get it how a distance of 1 is a problem but maybe raising an error and skipping the sequence would be nice.

jrober84 commented 5 years ago

Hello,

thank you for the report, this issue has been addressed in the development branch of SISTR "sistr_cmd_update_2018" and will be merged into the main branch with the new release of SISTR.

Thanks,

James