Hi Takafumi, We are currently working on an answer to your question and hope to have a reply to you soon. Thank you for your patience.
--- Luvina Guruvadoo UCSC Genome Bioinformatics Group On 12/15/2011 8:10 AM, Takafumi Yamaguchi wrote: > Hi Greg, > > Thank you for the quick response. I don't see the error anymore on the > test server. > But I'm still having a problem with seeing " amino acid changes for > coding SNPs as well as give a chart of amino acid properties if there > is a non-synonymous change." > Do you think that I missed anything to set up or does it require > different tracks? > > I'm thinking that the details pages for this track means just clicking > SNPs on the track or visibility = full, but either cases don't seem to > show the chart.. > > I would appreciate your help, > > Taka > > > On Dec 13, 2011, at 2:39 PM, Greg Roe wrote: > >> Hi Taka, >> >> Thanks for reporting this. One of our engineers fixed this issue; it >> should be working on our test server now: >> http://genome-test.cse.ucsc.edu, and will be released to the live >> site soon. >> >> Please let us know if you have any additional comments or questions: >> [email protected] >> >> - >> Greg Roe >> UCSC Genome Bioinformatics Group >> >> >> On 12/12/11 2:36 PM, Takafumi Yamaguchi wrote: >>> Hello, >>> >>> I have a question that I would like to ask regarding pgSNP format. >>> It says that "The details pages for this track type will >>> automatically compute amino acid changes for coding SNPs as well as >>> give a chart of amino acid properties if there is a non-synonymous >>> change." >>> Does it apply to sacCer3 as well? I have errors when I click SNPs on >>> CDS. >>> >>> The errors are like >>> • Can't start query: >>> select chrom, txStart, txEnd, name, 0, strand, cdsStart, cdsEnd, 0, >>> exonCount, exonEnds, exonStarts from knownGene where chrom = 'chrI' >>> and cdsStart <= 27129 and cdsEnd >= 27130 >>> • mySQL error 1146: Table 'sacCer3.knownGene' doesn't exist >>> >>> I would appreciate your response. >>> >>> Best regards, >>> >>> Taka >>> >>> -- >>> Takafumi Yamaguchi >>> Graduate Student >>> Roth Lab | Donnelly CCBR | University of Toronto >>> > > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
