Hello, On 2013-01-29, at 7:03 AM, Rashad <[email protected]> wrote: > We are trying to get the DDL for the schema I mentioned earlier. But, I > do have another question. The operations that are performed through the > MartConfigurator, like adding a new data set, selecting what tables to > include, ...etc. Can all of this be done from the command line or by > including some configuration file? Is there another manual that explains > that? Sorry if I have missed something. There is some scripting support available via MartScript. You need to configure your mart once via MartConfigurator, but then can use MartScript to take care of regular updates.
The software is available here: https://github.com/pubmed2ensembl/MartScript A publication where the software was used can be found here: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3183000/ An in-depth description on carrying out mart updates via MartScript was recently blogged here: http://joachimbaran.wordpress.com/2012/07/18/biomart-automation/ Joachim
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