44084c9ebca839e772897824d7c8eb9adab578c3 galt Tue Jul 26 13:29:08 2011 -0700 oops diff --git src/blat/version.doc src/blat/version.doc index cdfb1fb..b343b30 100644 --- src/blat/version.doc +++ src/blat/version.doc @@ -1,30 +1,30 @@ 35: o (in 34x1) Making total query output reporting a 64 bit number to avoid overflow when people using more than 4 gig of query sequence. o (in 34x2) Fixed -out=blast to use +/- instead of -/+ for non-translated. o (in 34x3) Fixed -minScore, filter was not working when over half query-size. o (in 34x4) Made it convert u's to t's for RNA sequence stuff. o (in 34x5) Made gfServer calculate repMatch based on stepSize/tileSize combination the way blat does rather than just being good for stepSize 11. o (in 34x6) Fixed negative strand pcr psl output o (in 34x7) Made it check and error out if the same name is reused in the target database. o (in 34x8) Truncate in output PCR primers that dangle off target chrom ends. o (in 34x9) If -fastMap is used, check that query sizes do not exceed MAXSINGLEPIECESIZE. o (in 34x10) Added IP-logging option to gfServer. o (in 34x11) Fixed segfault when maxIntron <= 11 and tileSize <= 11. - o (in 34x11) Fixed segfault when -fine -minIdentity=0 -minScore=0. + o (in 34x12) Fixed segfault when -fine -minIdentity=0 -minScore=0. 34: o (in 33x1) Put in check for two bit files with more than 4 gig. o (in 33x2) Allowing -maxGap in gfServer. (Forgot to add it to options table.) o (in 33x3) Making -maxIntron work better. o (in 33x4) Fixed very rare bug that manifested doing protein/translated DNA alignments in gfClient (not blat) in some frames when the alignment extended all the way to the end of the DNA. o (in 33x4) Support .nib and .2bit:seq[:start-end] file types for query. o (in 33x5) Making polyA trimming leave two bases so as not to mess up stop codon in rna's that just contain coding region. o (in 33x6) Improving usage message on repMatch. o (in 33x7) Making blat not abort with error on empty target database.