v145-final - 23 Oct. 2006

Code changes:

Added -customLib option to automated doRepeatMasker for using custom repeat libs. (Andy)
Mod to doBlastChainNet.pl to avoid occasional out-of-synch problems. (Angie)
Updated omimParseAv.c to be offset/length-based. (Fan)
Mods to omimParseRec.c to prevent buffer overflow. (Fan)
Minor cleanup, removed unnecessary #ifndef in near/hgNear, near/hgNetDist. (Galt)
Added strand to Locus Variants details page. (Belinda)
Check if active set to 1 before printing positions links for hgConvert. (Rachel)
Added noRound option to hgGnfMicroarray.c for use when data values shouldn't be rounded prior to loading into DB. (Rachel)
Modified autoSql to use sqlFloat/sqlDouble instead of atof. (Heather)
Modified hgc.c to handle multiple alignments in SNP sequence display. (Heather)
Mod to preserve custom tracks by assembly. (Kate)
Fixed hgCustom navigation issues. (Kate)
Removed gala code. (Kate)
Mod to prevent case-insensitive matching of chrom names in CTs. (Kate)
Fix to hgc for checking custom track type. (Kate)
Added utility function to hdb for retrieving a dbDb entry. (Kate)
Added gapSplit to utils (simple fast splitter to eliminate gaps of >= N and break up sequence). (Hiram)
Added option to liftUp.c to ignore version #s, send info msgs etc. to stderr. (Mark)
Added warning to genback/etc/dbload if -allowLargeDeletes is used. (Mark)

Work on gasAcu1 assembly. (Angie)
Generated gasAcu1 net/chain alignments for hg18. (Angie)
Generated several pairwise fly alignments using WindowMasker. (Angie)
Added mm8 Jax annotations and gasAcu1 net/chain alignments. (Angie)
Updated hg18 upstream MAF file. (Fan)
Updated danRer3/danRer4/hgFixed Affy wild type array data with data processed by different method, changed parameters for array scores histogram. (Rachel)
Added danRer4 new RH map data, BAC clones & alias information in progress. (Rachel)
Added Yale TARs/Trasnfrags track for hg18 whole genome. (Rachel)
Added snpFreq table. (Heather)