tdreszer: changes by file

review to branch (2009-05-05 to 2009-05-12) v206

• src/hg/encode/encodeDownloadsPage/encodeDownloadsPage.pl
  • 1.12 lines changed: 168, context: html, text, full: html, text
    Now the page will be sorted on the defined sort order fields from the metadata.
• src/hg/encode/encodeValidate/doEncodeValidate.pl
  • 1.181 lines changed: 8, context: html, text, full: html, text
    Fixed -quick, allow fragLength=0, removed obsolete trackDb.ra settings
• src/hg/hgTables/mainPage.c
  • 1.143 lines changed: 3, context: html, text, full: html, text
    Free memory after restrictionDate lookup
• src/hg/hgTrackUi/hgTrackUi.c
  • 1.488 lines changed: 11, context: html, text, full: html, text
    Call common API for showing downloads, schema and metadata links
  • 1.487 lines changed: 1, context: html, text, full: html, text
    Changed 'Track details..s' to 'Table metadata...'
  • 1.486 lines changed: 5, context: html, text, full: html, text
    Added call to show metadata if track is not a composite
• src/hg/hgc/hgc.c
  • 1.1539 lines changed: 2, context: html, text, full: html, text
    Call common API for showing downloads, schema and metadata links
  • 1.1535 lines changed: 11, context: html, text, full: html, text
    Added the special case Ensembl Transcript Report link back in, due to tRNAs not having Ensembl IDs causing the trackDb.ra url setting to fail
  • 1.1534 lines changed: 5, context: html, text, full: html, text
    Added call to show metadata
  • 1.1533 lines changed: 27, context: html, text, full: html, text
    Removed obsolete special case code for ENCODE Gencode linking to VEGA and Ensembl, because this is now done with trackDB.ra url settin. Also made dataVersion and restriction date use metadata
• src/hg/inc/hui.h
  • 1.128 lines changed: 3, context: html, text, full: html, text
    Added API for hgTrackUi and hgc to show schemaLink, Downlaods link and metadata
  • 1.127 lines changed: 3, context: html, text, full: html, text
    Moved metadata display to separate function to be called from hgc and hgTables
  • 1.126 lines changed: 2, context: html, text, full: html, text
    Clarified function comment
• src/hg/inc/trackDb.h
  • 1.48 lines changed: 4, context: html, text, full: html, text
    Added simple routine to find a metadata setting
• src/hg/js/hui.js
  • 1.26 lines changed: 20, context: html, text, full: html, text
    Moved metadata display toggle code to utils to be called from hgc and hgTrackUi
• src/hg/js/utils.js
  • 1.21 lines changed: 21, context: html, text, full: html, text
    Moved metadata display toggle code to utils to be called from hgc and hgTrackUi
• src/hg/lib/hui.c
  • 1.194 lines changed: 3, context: html, text, full: html, text
    Added a link to help on 'Filter by category' UI
  • 1.193 lines changed: 111, context: html, text, full: html, text
    Added API for hgTrackUi and hgc to show schemaLink, Downlaods link and metadata
  • 1.192 lines changed: 57, context: html, text, full: html, text
    Moved metadata display to separate function to be called from hgc and hgTables
  • 1.191 lines changed: 37, context: html, text, full: html, text
    Use metadata setting for controlled vocabulary look up and for restriction date lookup
• src/hg/lib/trackDbCustom.c
  • 1.64 lines changed: 22, context: html, text, full: html, text
    Added simple routine to find a metadata setting
• src/hg/makeDb/trackDb/README
  • 1.70 lines changed: 46, context: html, text, full: html, text
    Added description of scoreFilter and filterBy category
• src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra
  • 1.293 lines changed: 16, context: html, text, full: html, text
    Changed the name of some Yale tables to be consistent
  • 1.292 lines changed: 518, context: html, text, full: html, text
    Had to regen some 1/2 of Yale Raw Signals. Since already release, made alpha/beta tracks.
  • 1.291 lines changed: 461, context: html, text, full: html, text
    Added Duke/Uta/Unc Raw signals back in, now that they have been regenerated.
  • 1.290 lines changed: 460, context: html, text, full: html, text
    Temprarily comment out Duke/Unc/Uta RawSignals while they are regenerated
  • 1.289 lines changed: 2, context: html, text, full: html, text
    Removed the Gencode url setting for auto-annotated track. tRNAs have no Ensembl ID so the link was broken.
  • 1.288 lines changed: 75, context: html, text, full: html, text
    Fixed some Yale metadata and make Gencode not a default track (as per Jim)
  • 1.286 lines changed: 841, context: html, text, full: html, text
    Removed a lot of obsolete settings - values now in metadata. Should remove all these obsolete settings from non-released tracks
  • 1.285 lines changed: 14, context: html, text, full: html, text
    Marked the metadata of Yale's datasets that still have problems (peaks and signals)
  • 1.284 lines changed: 395, context: html, text, full: html, text
    Added 6 more datasets for Yale and changed the Peak controls
• src/hg/makeDb/trackDb/human/hg18/wgEncodeSangerGencode.html
  • 1.11 lines changed: 6, context: html, text, full: html, text
    Added Display Conventions section
• src/lib/cheapcgi.c
  • 1.121 lines changed: 1, context: html, text, full: html, text
    Removed NO_VALUE define, as it is defined in the header file. Thanks Hiram