Hello, Sohini. I would suggest compiling from the latest source if possible. If you are still having problems, could you please send copies of your input files so we can debug them? You can send them directly to me if you want them to remain off-list.
Please contact us again at [email protected] if you have any further questions. --- Steve Heitner UCSC Genome Bioinformatics Group -----Original Message----- From: [email protected] [mailto:[email protected]] On Behalf Of sohini Sent: Monday, June 04, 2012 10:48 PM To: [email protected] Subject: [Genome] Error while doing BLAT Hello, I am running BLAT for aligning cDNA sequences with Refseq sequences for each chromosome for human(hg19).However for some of the chromosomes the program is getting aborted. The following error is shown in the command prompt [./blat /media/ZGLAB_AUBAK/lncrna/Refseq/RS_UCSC/refseq_ucsc_with_promoter/refseq_uc sc genomic_chr6seqwithpro.fa /media/ZGLAB_AUBAK/lncrna/cDNA/cDNA_ucsc_2_extracted/cDNAucsc_2chr6.fa 6cdref.psl Loaded 128123074 letters in 2019 sequences blat: fuzzyFind.c:1436: ffFind: Assertion `hayStart <= hayEnd' failed.] Could you please tell me what this means and how to solve the problem? Please reply soon. Sohini Chakraborty CSIR-Junior Research Fellow CoE in Bioinformatics Bose Institute DST, Govt. of India -- Open WebMail Project (http://openwebmail.org) _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
