mikep: changes by commit

review to branch (2009-03-17 to 2009-03-31) v203

• adding link to reports
  • src/utils/qa/weeklybld/doNewReview.csh 1.14 - lines changed: 1, context: html, text, full: html, text
• fixing conflicts
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.215 - lines changed: 208, context: html, text, full: html, text
• removing a broken track while it is regnerated
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.217 - lines changed: 19, context: html, text, full: html, text
  • src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra 1.216 - lines changed: 19, context: html, text, full: html, text
• make library function to read all chromInfo, and add chromDb option to validateFiles to get chromInfo from DB
  • src/hg/encode/validateFiles/validateFiles.c 1.12 - lines changed: 12, context: html, text, full: html, text
  • src/hg/inc/chromInfo.h 1.4 - lines changed: 5, context: html, text, full: html, text
  • src/hg/lib/baseMaskCommon.c 1.8 - lines changed: 45, context: html, text, full: html, text
  • src/hg/lib/chromInfo.c 1.7 - lines changed: 47, context: html, text, full: html, text
• made this a library function, but need to make sure it is semantically identical and tested before removing from featureBits
  • src/hg/featureBits/featureBits.c 1.54 - lines changed: 2, context: html, text, full: html, text
• adding better error reporting on signed/unsigned ints and allow dots in sequence in tagAlign/pairedTagAlign
  • src/hg/encode/validateFiles/validateFiles.c 1.13 - lines changed: 73, context: html, text, full: html, text
• adding chrom/size checking against hg18
  • src/hg/encode/encodeValidate/doEncodeValidate.pl 1.170 - lines changed: 7, context: html, text, full: html, text
• utility to convert maf to fasta
  • src/hg/mouseStuff/mafToFa/mafToFa.c 1.1 - lines changed: 77, context: html, text, full: html, text
  • src/hg/mouseStuff/mafToFa/makefile 1.1 - lines changed: 14, context: html, text, full: html, text
• option to strip dots and dashes
  • src/hg/mouseStuff/mafToFa/mafToFa.c 1.2 - lines changed: 13, context: html, text, full: html, text
• convert maf to clustalw-like format
  • src/hg/mouseStuff/mafToClustalw/mafToClustalw.c 1.1 - lines changed: 61, context: html, text, full: html, text
  • src/hg/mouseStuff/mafToClustalw/makefile 1.1 - lines changed: 14, context: html, text, full: html, text
• v203 final build
  • src/utils/qa/weeklybld/buildEnv.csh 1.52 - lines changed: 3, context: html, text, full: html, text
• "New version number v203"
  • src/hg/inc/versionInfo.h 1.143 - lines changed: 1, context: html, text, full: html, text