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OBIPR2(1) OBITools OBIPR2(1)

NAME

obipr2 - description of obipr2

obipr2: converts and optionally download the PR2 database into an ecoPCR database. The formated database include the taxonomy as defined by the PR2 authors.

WARNING:

Take care that the numeric taxids associated to the sequences are specific to this PR2 database and not compatible with the NCBI taxids. The taxids present in a version of the PR2 database are are just valid for this version of the database and not compatible with the taxids used in another version downloaded at an other time.


Example:

> obipr2




This command downloads and formats the latest version of the PR2 database from the official

`PR2 web site<http://ssu-rrna.org/pr2/>`_
.


OBIPR2 SPECIFIC OPTIONS

--local=<DIRNAME>
Specify you have already downloaded a copy of the PR2 database located at the following URL http://5.196.17.195/pr2/download/entire_database


Example:

> obipr2 --local=PR2Dir


This format PR2 database pre-downloaded in the PR2Dir directory.




COMMON OPTIONS

-h, --help
Shows this help message and exits.

--DEBUG
Sets logging in debug mode.

AUTHOR

The OBITools Development Team - LECA

COPYRIGHT

2019 - 2015, OBITool Development Team
January 28, 2019 1.02 12