Commits for galt

v282_preview2 to v282_base (2013-04-09 to 2013-04-16) v282

• fixing allowed genomes (hg38 instead of hg36 oops), changing vm version comment to 2nd line since that makes it work with jims validated.txt loader code, added flush to tmp output
  • src/hg/encode3/validateManifest/makefile - lines changed 2, context: html, text, full: html, text
  • src/hg/encode3/validateManifest/validateManifest.c - lines changed 7, context: html, text, full: html, text
• fixing some variable names to be conventional
  • src/hg/encode3/validateManifest/validateManifest.c - lines changed 31, context: html, text, full: html, text
• adding simple gtf checking by running gffRead on the file; minor improvements in comments
  • src/hg/encode3/validateManifest/validateManifest.c - lines changed 13, context: html, text, full: html, text
• improving bam handling
  • src/hg/encode3/validateManifest/validateManifest.c - lines changed 17, context: html, text, full: html, text
• increment vm version to 1.2, added fileExists check early, make version comment clearer
  • src/hg/encode3/validateManifest/validateManifest.c - lines changed 25, context: html, text, full: html, text
• adding support for format "unknown" as requested by jim
  • src/hg/encode3/validateManifest/validateManifest.c - lines changed 3, context: html, text, full: html, text
• adding support for detecting validateFiles in the current directory and then using ./validateFiles in the commandline
  • src/hg/encode3/validateManifest/validateManifest.c - lines changed 13, context: html, text, full: html, text
• added output_type, experiment, replicate, enriched_in as required fields
  • src/hg/encode3/validateManifest/validateManifest.c - lines changed 23, context: html, text, full: html, text