NAME

map-gis-ali.pl - Build a GI-to-taxid id mapper from GI numbers in ALI files

VERSION

version 0.181170

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

AUTHOR

Denis BAURAIN <denis.baurain@uliege.be>

CONTRIBUTOR

Loic MEUNIER <loic.meunier@doct.uliege.be>

COPYRIGHT AND LICENSE

This software is copyright (c) 2013 by University of Liege / Unit of Eukaryotic Phylogenomics / Denis BAURAIN.

This is free software; you can redistribute it and/or modify it under the same terms as the Perl 5 programming language system itself.