I'm afraid its still not working, I can get it to output to a text file but it is parsing out just the "------------" row from the html file (I ''ve run all my BLAT queries as hyperlink output format)
Chris -----Original Message----- From: Galt Barber [mailto:[email protected]] Sent: 13 September 2011 22:02 To: Buxton Chris (NORTH BRISTOL NHS TRUST) Cc: [email protected] Subject: Re: [Genome] Problem with parseBlatOutput script for batch BLAT submission data Hi, Chris! http://genomewiki.ucsc.edu/index.php/Blat_Scripts I fixed the second script. It was screen-scraping the blat html output, but that had changed so that it couldn't identify the tag correctly. -Galt > Hi, > > There are two perl scripts listed on > http://genomewiki.ucsc.edu/index.php/Blat_Scripts to enable batch submission > of sequences for homology comparisons to BLAT. > > I can get the submission one to work fine, but cant figure out why the second > script that parses the output from the first (parseBlatOutput) doesn't seem > to work with either html or psl format outputs from the batch submission > script? > > Any help would be much appreciated, > > Thanks > > Chris > > ******************************************************************************************************************** This message may contain confidential information. If you are not the intended recipient please inform the sender that you have received the message in error before deleting it. Please do not disclose, copy or distribute information in this e-mail or take any action in reliance on its contents: to do so is strictly prohibited and may be unlawful. Thank you for your co-operation. NHSmail is the secure email and directory service available for all NHS staff in England and Scotland NHSmail is approved for exchanging patient data and other sensitive information with NHSmail and GSi recipients NHSmail provides an email address for your career in the NHS and can be accessed anywhere For more information and to find out how you can switch, visit www.connectingforhealth.nhs.uk/nhsmail ******************************************************************************************************************** _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
