Hi Hassan, There has been a number of similar requests in the past. We are planning to properly expose the update API in the 0.8.
a On 08/09/10 6:51 AM, "a.has...@har.mrc.ac.uk" <a.has...@har.mrc.ac.uk> wrote: Hi, Everytime we have a new data from medical clinics, we do the following steps from MartEditor GUI in order to update biomart: File => Naive File => import File => update all File => export Just because of this manual step, we cannot script/automate our whole data upload process. It will be great if we can script the above functionality. Do you reckon that MartScript will help us? I am going to IMGC, Crete, Greece in October. Please let me know if you will be there then we can discuss this further. Thanks. Best Regards, Hassan http://cern.ch/ahmadh/portfolio > Hi! > > You might be interested in MartScript, > http://github.com/joejimbo/MartScript, which can be used to > automatically create Ensembl (and related) marts. > > I do not know your database structure, but perhaps it would work for > you with some minor modifications as well. The major downside of using > MartScript right now is obvious: I have been too lazy to document it > properly yet. If you have a go at it, please let me know and perhaps > we can figure out to get it working together. Are you around at Genome > Informatics next week? We could have a chat about it too. > > Best Wishes, > Joachim > > -- > B.1079 Michael Smith Building > Faculty of Life Sciences > The University of Manchester > Oxford Road > Manchester > M13 9PT > United Kingdom > This email may have a PROTECTIVE MARKING, for an explanation please see: http://www.mrc.ac.uk/About/Informationandstandards/Documentmarking/index.htm Arek Kasprzyk Director, Bioinformatics Operations and Principal Investigator Ontario Institute for Cancer Research MaRS Centre, South Tower 101 College Street, Suite 800 Toronto, Ontario, Canada M5G 0A3 Tel: 416-673-8559 Toll-free: 1-866-678-6427 www.oicr.on.ca This message and any attachments may contain confidential and/or privileged information for the sole use of the intended recipient. Any review or distribution by anyone other than the person for whom it was originally intended is strictly prohibited. If you have received this message in error, please contact the sender and delete all copies. Opinions, conclusions or other information contained in this message may not be that of the organization.
