Commit 8859eca4 authored by Andreas Kusalananda Kähäri's avatar Andreas Kusalananda Kähäri
Browse files

Cleanup POD.

parent 15e26b82
......@@ -2,9 +2,11 @@
=head1 NAME
translation_attribs_wrapper.pl - script to calculate peptide statistics and store them in
translation_attrib table. This is mainly a wrapper around
the translation_attribs script to submit several jobs to the farm
translation_attribs_wrapper.pl
Script to calculate peptide statistics and store them in
translation_attrib table. This is mainly a wrapper around the
translation_attribs.pl script to submit several jobs to the farm.
=head1 SYNOPSIS
......@@ -12,38 +14,44 @@ translation_attribs_wrapper.pl [arguments]
Required arguments:
--user=user username for the database
--user=user username for the database
--pass=pass password for database
--pass=pass password for database
--release=release release number
--release=release release number
Optional arguments:
--binpath=PATH directory where the binary script to calculate
pepstats is stored (default: /software/pubseq/bin/emboss)
--binpath=PATH directory where the binary script to
calculate pepstats is stored (default:
/software/pubseq/bin/emboss)
--tmpdir=directory directory to store temporary results of pepstats
(default: /tmp)
--tmpfile=file file to store tmp results of pepstats (default=/tmp)
--host=host server where the core databases are stored
(default: ens-staging)
--host=host server where the core databases are stored (default: ens-staging)
--port=port port (default: 3306)
--port=port port (default=3306)
--path=path path where the LSF output will be stored
(default: the current directory)
--path=path path where the LSF output will be stored (default=pwd)
--help print help (this message)
--help display help (this message)
=head1 DESCRIPTION
This script will calculate the peptide statistics for all core databases in the server
and store them as a translation_attrib values. This is a wraper around the translation_attrib
and will simply submit jobs to the farm grouping the core databases in patterns
This script will calculate the peptide statistics for all core databases
in the server and store them as a translation_attrib values. This is a
wraper around the translation_attrib and will simply submit jobs to the
farm grouping the core databases in patterns.
=head1 EXAMPLES
Calculate translation_attributes for all databases in ens-staging
Calculate translation_attributes for all databases in ens-staging
$ ./translation_attribs_wrapper.pl --user ensadmin --pass password --release 51 --path /my/path/to/lsf/output
$ ./translation_attribs_wrapper.pl --user ensadmin \
--pass password --release 51 --path /my/path/to/lsf/output
=head1 LICENCE
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