File Changes for angie

v284_preview to v284_preview2 (2013-05-14 to 2013-05-21) v284

• src/hg/lib/annoStreamDb.c
  • lines changed 29, context: html, text, full: html, text
    Added 2 new args to annoStreamer:nextRow: minChrom and minEnd(which could also be called regionStart depending on point of view).
    Streamers may use those hints to skip over data that precedes
    minChrom and minEnd, to avoid the overhead of creating annoRows
    that annoGrators will then have to skip over. When primary data
    are sparse and grator data are very dense, this saves significant
    memory and user-cycles. Unfortunately mysql can still be the
    bottleneck for elapsed time. Room for improvement in annoStreamDb:
    when assembly has a reasonably small number of sequences (<1000),
    genome-wide queries could be internally broken down into per-seq
    queries; that would let us skip over chroms that precede minChrom.
    refs #6152
    
• src/hg/lib/annoStreamWig.c
  • lines changed 3, context: html, text, full: html, text
    Added 2 new args to annoStreamer:nextRow: minChrom and minEnd(which could also be called regionStart depending on point of view).
    Streamers may use those hints to skip over data that precedes
    minChrom and minEnd, to avoid the overhead of creating annoRows
    that annoGrators will then have to skip over. When primary data
    are sparse and grator data are very dense, this saves significant
    memory and user-cycles. Unfortunately mysql can still be the
    bottleneck for elapsed time. Room for improvement in annoStreamDb:
    when assembly has a reasonably small number of sequences (<1000),
    genome-wide queries could be internally broken down into per-seq
    queries; that would let us skip over chroms that precede minChrom.
    refs #6152
    
• src/inc/annoStreamer.h
  • lines changed 5, context: html, text, full: html, text
    Added 2 new args to annoStreamer:nextRow: minChrom and minEnd(which could also be called regionStart depending on point of view).
    Streamers may use those hints to skip over data that precedes
    minChrom and minEnd, to avoid the overhead of creating annoRows
    that annoGrators will then have to skip over. When primary data
    are sparse and grator data are very dense, this saves significant
    memory and user-cycles. Unfortunately mysql can still be the
    bottleneck for elapsed time. Room for improvement in annoStreamDb:
    when assembly has a reasonably small number of sequences (<1000),
    genome-wide queries could be internally broken down into per-seq
    queries; that would let us skip over chroms that precede minChrom.
    refs #6152
    
• src/lib/annoGrator.c
  • lines changed 5, context: html, text, full: html, text
    Added 2 new args to annoStreamer:nextRow: minChrom and minEnd(which could also be called regionStart depending on point of view).
    Streamers may use those hints to skip over data that precedes
    minChrom and minEnd, to avoid the overhead of creating annoRows
    that annoGrators will then have to skip over. When primary data
    are sparse and grator data are very dense, this saves significant
    memory and user-cycles. Unfortunately mysql can still be the
    bottleneck for elapsed time. Room for improvement in annoStreamDb:
    when assembly has a reasonably small number of sequences (<1000),
    genome-wide queries could be internally broken down into per-seq
    queries; that would let us skip over chroms that precede minChrom.
    refs #6152
    
• src/lib/annoGratorQuery.c
  • lines changed 1, context: html, text, full: html, text
    Added 2 new args to annoStreamer:nextRow: minChrom and minEnd(which could also be called regionStart depending on point of view).
    Streamers may use those hints to skip over data that precedes
    minChrom and minEnd, to avoid the overhead of creating annoRows
    that annoGrators will then have to skip over. When primary data
    are sparse and grator data are very dense, this saves significant
    memory and user-cycles. Unfortunately mysql can still be the
    bottleneck for elapsed time. Room for improvement in annoStreamDb:
    when assembly has a reasonably small number of sequences (<1000),
    genome-wide queries could be internally broken down into per-seq
    queries; that would let us skip over chroms that precede minChrom.
    refs #6152
    
• src/lib/annoStreamBigBed.c
  • lines changed 23, context: html, text, full: html, text
    Added 2 new args to annoStreamer:nextRow: minChrom and minEnd(which could also be called regionStart depending on point of view).
    Streamers may use those hints to skip over data that precedes
    minChrom and minEnd, to avoid the overhead of creating annoRows
    that annoGrators will then have to skip over. When primary data
    are sparse and grator data are very dense, this saves significant
    memory and user-cycles. Unfortunately mysql can still be the
    bottleneck for elapsed time. Room for improvement in annoStreamDb:
    when assembly has a reasonably small number of sequences (<1000),
    genome-wide queries could be internally broken down into per-seq
    queries; that would let us skip over chroms that precede minChrom.
    refs #6152
    
• src/lib/annoStreamBigWig.c
  • lines changed 25, context: html, text, full: html, text
    Added 2 new args to annoStreamer:nextRow: minChrom and minEnd(which could also be called regionStart depending on point of view).
    Streamers may use those hints to skip over data that precedes
    minChrom and minEnd, to avoid the overhead of creating annoRows
    that annoGrators will then have to skip over. When primary data
    are sparse and grator data are very dense, this saves significant
    memory and user-cycles. Unfortunately mysql can still be the
    bottleneck for elapsed time. Room for improvement in annoStreamDb:
    when assembly has a reasonably small number of sequences (<1000),
    genome-wide queries could be internally broken down into per-seq
    queries; that would let us skip over chroms that precede minChrom.
    refs #6152
    
• src/lib/annoStreamTab.c
  • lines changed 31, context: html, text, full: html, text
    Added 2 new args to annoStreamer:nextRow: minChrom and minEnd(which could also be called regionStart depending on point of view).
    Streamers may use those hints to skip over data that precedes
    minChrom and minEnd, to avoid the overhead of creating annoRows
    that annoGrators will then have to skip over. When primary data
    are sparse and grator data are very dense, this saves significant
    memory and user-cycles. Unfortunately mysql can still be the
    bottleneck for elapsed time. Room for improvement in annoStreamDb:
    when assembly has a reasonably small number of sequences (<1000),
    genome-wide queries could be internally broken down into per-seq
    queries; that would let us skip over chroms that precede minChrom.
    refs #6152
    
• src/lib/annoStreamVcf.c
  • lines changed 49, context: html, text, full: html, text
    Added 2 new args to annoStreamer:nextRow: minChrom and minEnd(which could also be called regionStart depending on point of view).
    Streamers may use those hints to skip over data that precedes
    minChrom and minEnd, to avoid the overhead of creating annoRows
    that annoGrators will then have to skip over. When primary data
    are sparse and grator data are very dense, this saves significant
    memory and user-cycles. Unfortunately mysql can still be the
    bottleneck for elapsed time. Room for improvement in annoStreamDb:
    when assembly has a reasonably small number of sequences (<1000),
    genome-wide queries could be internally broken down into per-seq
    queries; that would let us skip over chroms that precede minChrom.
    refs #6152