Hi Tim, Thank you for the link which describes way to get Atremis working with chado. I followed the instructions given in the page by downloading the 3 files and modifying them accordingly. Then I loaded them into the data base using the commands provided in the page. The copied the terminal output in the file attached in this mail.
Then I downloaded the stable release of Artemis again from the link given by you and executed the following command: ./art -Dchado="localhost:5432/rohit_chado_01?rohit" -Dibatis \ Pfalciparum:NC_004314 I have added all the information that I could collect from the log files, results of queries that were executed in the file that I attached. At a higher level I understand that for some query the reesult is 0 and hence it has problem reading null values. But I dont understand why there is a null value as the data is loaded correctly in the database. Please let me know what the problem is as well as if I should change any of the configuration files in Artemis inorder to make it work with chado. I did not do any changes to any of the files. I just downloaded the stable release and ran the command in the terminal. I appreciate your help very much. Regards, Rohit On Mon, Oct 26, 2009 at 4:02 PM, Tim Carver <t...@sanger.ac.uk> wrote: > Hi Rohit > > I tried loading that example but with the ‹noexon flag as the output you > sent suggested but it complains about YAL069W not having a parent. As you > do > not get any rows with the query I sent I suspect it has not loaded properly > and it is not finding the chromosome feature. > > For an example with Artemis have a look at this tutorial: > > > http://www.sanger.ac.uk/Software/Artemis/v11/chado/GMOD2009SummerSchool.shtm > l#Examples_of_Loading_Sequences_into_the_Database<http://www.sanger.ac.uk/Software/Artemis/v11/chado/GMOD2009SummerSchool.shtm%0Al#Examples_of_Loading_Sequences_into_the_Database> > > The query I sent you searches the feature table for entries that have > residues for Artemis to open up (e.g. chromosome, contig features). > > Regards > Tim > >
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