Internal outfile variable cannot be overridden by command line option

[Former user]

Dear MetaBAT team,

thank you for your great software. Here's a minor suggestion for a future release: When I call metabat version 0.26.3 using the -o option, I get some nasty error message that might indicate that an internal outfile variable is not overridden by the command line option.

terminate called after throwing an instance of 'boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<boost::program_options::multiple_occurrences> >'
  what():  option '--outFile' cannot be specified more than once
/n/phylosopher/sw/metabat-0.26.3/runMetaBat_GD_Nshare.sh: line 137: 46881 Aborted                 $MB $metabatopts --inFile $assembly --outFile $outname --abdFile ${depth}

Cheers, Steffen

[Don Kang]

-o option cannot be specified using runMetaBat.sh. But if you used two step approach, you can specify it when using metabat command. Refer to main page for the details.