For now, put 'gatk' in that column for the builds that you want to make
available. At this point it is not actually checking the contents, but the
presence of the additional column is enough to allow it to be used in the GATK
in Galaxy. In the future the behavior will be properly enhanced to work
properly on a comma separated listing.
Thanks for using Galaxy,
On Nov 15, 2011, at 12:14 PM, Carlos Borroto wrote:
> I noted there have been a change on the way GATK tools read
> picard_index.loc, from "tool_data_table_conf.xml":
> <!-- Location of Picard dict files valid for GATK -->
> <table name="gatk_picard_indexes" comment_char="#">
> <columns>value, dbkey, name, path, tools_valid_for</columns>
> <file path="tool-data/picard_index.loc" />
> And I can't decipher how to use column "tools_valid_for". I was able
> to show selectable reference genomes in one of the tools by adding its
> id there, but I don't know how to add the rest. Should I separate them
> by spaces? commas? tabs?, none of these seem to work for me.
> Also, what is the best way to identify a tool id, should I just use
> file name for its xml file?
> Thanks in advance,
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Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at: