USAGE

map-gis-ali.pl --tax=<dir> --idm-out=<out> <infiles> [optional arguments]

REQUIRED ARGUMENTS

<infiles>

Path to input ALI files [repeatable argument].

--taxdir=<dir>

Path to local mirror of the NCBI Taxonomy database.

--idm-out=<file>

Path to consolidated GI-to-taxid IDM outfile.

OPTIONS

--save-mem[ory]

Save computer memory by using GI-to-taxid mapper directly from disk [default: no]. This option only applies when using gi items.

Not loading the mapper into memory spares 2 GB of system memory but results in GI mapping being (about 20%) slower. On a MacBook Air (8 GB), loading the whole mapper into memory actually fails.

--version

--usage

--help

--man

Print the usual program information