Commit 6ffa4079 authored by Andreas Kusalananda Kähäri's avatar Andreas Kusalananda Kähäri
Browse files

Clean up POD.

parent 253bcc8f
...@@ -2,9 +2,10 @@ ...@@ -2,9 +2,10 @@
=head1 NAME =head1 NAME
update_mapping_set.pl - script to update 2 tables: mapping_set and seq_region_id mapping. update_mapping_set.pl - script to update 2 tables: mapping_set and
These tables are supposed to store different mapping of seq_region_id seq_region_id mapping. These tables are
between releases supposed to store different mapping of
seq_region_id between releases
=head1 SYNOPSIS =head1 SYNOPSIS
...@@ -12,39 +13,50 @@ update_mapping_set.pl [arguments] ...@@ -12,39 +13,50 @@ update_mapping_set.pl [arguments]
Required arguments: Required arguments:
--user=user username for the database --user=user username for the database
--pass=pass password for the database --pass=pass password for the database
--release=num_release release we want to run the updating --release=num_release release we want to run the updating
Optional arguments: Optional arguments:
--host=host server where the core databases are stored (default: ens-staging) --host=host server where the core databases are stored
(default: ens-staging)
--dbname=dbname if you want a single database to update the mapping_set information --dbname=dbname if you want a single database to update
(all databases by default) the mapping_set information (default: all
databases)
--port=port port (default=3306) --port=port port (default: 3306)
--help print help (this message) --help print help (this message)
=head1 DESCRIPTION =head1 DESCRIPTION
This script will update the mapping_set table with the current schema_build information and indicate if the seq_region This script will update the mapping_set table with the current
table has changed from previous release. If it has, the table seq_region_mapping will contain the relation between old schema_build information and indicate if the seq_region table has
(external_seq_region_id) and the current (internal_seq_region_id). If it hasn't, a single entry in the mapping_set table changed from previous release.
with the same mapping_set_id as the previous release will be stored
If it has, the table seq_region_mapping will contain the
relation between old (external_seq_region_id) and the current
(internal_seq_region_id).
If it hasn't, a single entry in the mapping_set table with the same
mapping_set_id as the previous release will be stored.
=head1 EXAMPLES =head1 EXAMPLES
Update mapping_set information for all databases in ens-staging in release 50(usual use case in release process) Update mapping_set information for all databases in ens-staging in
release 50(usual use case in release process)
$ ./update_mapping_set.pl --user ensadmin --pass password --release 50 $ ./update_mapping_set.pl --user ensadmin \
--pass password --release 50
Update mapping_set information only for pig database in ens-genomics1 Update mapping_set information only for pig database in ens-genomics1
$ ./update_mapping_set.pl --host ens-genomics1 --user ensadmin --pass password --dbname my_pig_db --release 52 $ ./update_mapping_set.pl --host ens-genomics1 \
--user ensadmin --pass password --dbname my_pig_db --release 52
=head1 LICENCE =head1 LICENCE
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment