Hello James, In addition to my colleague's suggestion to run blat locally, you can also use a script to submit batches separated by appropriate time intervals. Please see this previously answered mailing list question for more information regarding this approach:
http://www.soe.ucsc.edu/pipermail/genome/2008-October/017492.html Best regards, Pauline Fujita UCSC Genome Bioinformatics Group http://genome.ucsc.edu Grille, James wrote: > I have 173 pages of 100mer DNA sequences (25 per page) I need to BLAT. > Does this mean I can only submit one page of 25 every 6.3 minutes (and > thus 19hrs to complete)? > > -Jim > > -----Original Message----- > From: Pauline Fujita [mailto:[email protected]] > Sent: Tuesday, January 20, 2009 12:35 PM > To: Grille, James {CSD.~Tucson} > Cc: [email protected] > Subject: Re: [Genome] large batch queries > > Hello James, > > Please see this previously answered mailing list question regarding our > policy on usage restrictions: > > http://www.soe.ucsc.edu/pipermail/genome/2005-October/008881.html > > If you let us know what you are trying to retrieve from our site we can > recommend a way for you to obtain the data without exceeding our limits. > > Best regards, > > Pauline Fujita > UCSC Genome Bioinformatics Group > http://genome.ucsc.edu > > > Grille, James wrote: > >> I received this message and am writing to you because I do indeed have >> large queries I am trying to submit.: >> >> >> >> There is a very high volume of traffic coming from your site (IP >> > address > >> 74.202.188.254) as of Mon Jan 19 09:26:04 2009 (California time). So >> that other users get a fair share of our bandwidth, we are putting in >> > a > >> delay of 10.1 seconds before we service your request. This delay will >> slowly decrease over a half hour as activity returns to normal. This >> high volume of traffic is likely due to program-driven rather than >> interactive access, or the submission of queries on a large number of >> sequences. If you are making large batch queries, please write to our >> [email protected] public mailing list and inquire about more >> > efficient > >> ways to access our data. If you are sharing an IP address with someone >> who is submitting large batch queries, we apologize for the >> inconvenience. Please contact [email protected] if you think >> > this > >> delay is being imposed unfairly. >> >> >> >> What can be done? Can you contact me ASAP? >> >> >> >> James Grille >> Scientist, Molecular Probe Core Team >> >> Ventana Medical Systems, Inc. >> a member of the Roche Group >> 1910 E. Innovation Park Drive >> Tucson, Arizona 85755 >> >> Tel: +1 520 229 4191 >> >> mailto: [email protected] >> www.ventanamed.com >> >> >> Confidentiality Note: This message is intended only for the use of the >> named recipient(s) and may contain confidential and/or proprietary >> information. If you are not the intended recipient, please contact the >> sender and delete this message. Any unauthorized use of the >> > information > >> contained in this message is prohibited. >> >> >> >> _______________________________________________ >> Genome maillist - [email protected] >> http://www.soe.ucsc.edu/mailman/listinfo/genome >> >> > > _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
