software and reference version

pha4ge / hAMRonization

Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure

GNU Lesser General Public License v3.0

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software and reference version #89

Closed MPC21 closed 2 months ago

MPC21 commented 2 months ago

How to get the version of analysis software and reference database as they seem compulsory when using hAMRonization? --analysis_software_version ANALYSIS_SOFTWARE_VERSION
--reference_database_version REFERENCE_DATABASE_VERSION

fmaguire commented 2 months ago

Hi @MPC21 those versions refer to whichever supported AMR annotation tool you are running.

For example, if amrfinderplus:

--analysis_software_version can be found by running amrfinder --version
--reference_database_version can be found in the output when you run amrfinder

or for rgi:

--analysis_software_version can be found by running rgi main --version
--reference_database_version can be found by running rgi database --version