mikep: changes by file

branch to review (2009-04-28 to 2009-05-05) v205

• src/hg/makefile
  • 1.150 lines changed: 3, context: html, text, full: html, text
    do make alpha in the encode dirs
• src/hg/encode/encodeLoad/doEncodeLoad.pl
  • 1.64 lines changed: 50, context: html, text, full: html, text
    add tagAligns as bigbed becuase they are too big to load to mysql
• src/hg/encode/encodeLoad/installSqlSchemas.pl
  • 1.2 lines changed: 26, context: html, text, full: html, text
    also copy .as files
• src/hg/lib/encode/tagAlign.sql
  • 1.3 lines changed: 4, context: html, text, full: html, text
    tagalign files exceed the 4gb mysql data limit
• src/hg/utils/automation/Encode.pm
  • 1.42 lines changed: 2, context: html, text, full: html, text
    updated message
  • 1.41 lines changed: 2, context: html, text, full: html, text
    add tagAligns as bigbed becuase they are too big to load to mysql
• src/inc/bigBed.h
  • 1.13 lines changed: 50, context: html, text, full: html, text
    splitting bigBedFileCreate() logic to load bed records from a file separately from calculating summary and writing files
• src/inc/cheapcgi.h
  • 1.65 lines changed: 3, context: html, text, full: html, text
    accessor for content_length request header
  • 1.64 lines changed: 6, context: html, text, full: html, text
    more cgi accessors for standard ENV vars
• src/inc/hash.h
  • 1.49 lines changed: 5, context: html, text, full: html, text
    I take the comemnts back. It seems some poeple like to store hash elements as the value of other hash elemnets in hashes.
  • 1.48 lines changed: 5, context: html, text, full: html, text
    expanding message which lead to a bug somewhere else
• src/lib/bigBed.c
  • 1.17 lines changed: 233, context: html, text, full: html, text
    splitting bigBedFileCreate() logic to load bed records from a file separately from calculating summary and writing files
• src/lib/cheapcgi.c
  • 1.120 lines changed: 6, context: html, text, full: html, text
    accessor for content_length request header
  • 1.119 lines changed: 12, context: html, text, full: html, text
    more cgi accessors for standard ENV vars
• src/lib/hash.c
  • 1.50 lines changed: 5, context: html, text, full: html, text
    I take the comemnts back. It seems some poeple like to store hash elements as the value of other hash elemnets in hashes.
  • 1.49 lines changed: 5, context: html, text, full: html, text
    expanding message which lead to a bug somewhere else
• src/utils/bedToBigBed/bedToBigBed.c
  • 1.5 lines changed: 8, context: html, text, full: html, text
    sorted option is now automatic in the bigBedFileCreate
• src/utils/qa/weeklybld/buildEnv.csh
  • 1.57 lines changed: 2, context: html, text, full: html, text
    v206 preview