fcda64e213150b3bd0ade930139e2893e1da42a4
braney
  Tue Aug 4 12:09:19 2015 -0700
first cut at bigPsl support in the browser.  #14241

diff --git src/hg/lib/bigPsl.as src/hg/lib/bigPsl.as
index ce8e583..5b5dfdf 100644
--- src/hg/lib/bigPsl.as
+++ src/hg/lib/bigPsl.as
@@ -2,31 +2,31 @@
 "bigPsl pairwise alignment"
     (
     string chrom;       "Reference sequence chromosome or scaffold"
     uint   chromStart;  "Start position in chromosome"
     uint   chromEnd;    "End position in chromosome"
     string name;        "Name or ID of item, ideally both human readable and unique"
     uint score;         "Score (0-1000)"
     char[1] strand;     "+ or - for strand"
     uint thickStart;    "Start of where display should be thick (start codon)"
     uint thickEnd;      "End of where display should be thick (stop codon)"
     uint reserved;       "RGB value (use R,G,B string in input file)"
     int blockCount;     "Number of blocks"
     int[blockCount] blockSizes; "Comma separated list of block sizes"
     int[blockCount] chromStarts; "Start positions relative to chromStart"
 
-    string  oChrom;     "Other chromosome in the alignment"
     uint    oChromStart;"Start position in other chromosome"
     uint    oChromEnd;  "End position in other chromosome"
     char[1] oStrand;    "+ or - for other strand"
     uint    oChromSize; "Size of other chromosome."
     int[blockCount] oChromStarts; "Start positions relative to oChromStart"
 
-    string  oSequence;  "Sequence on other chrom (or edit list, or empty)"
+    lstring  oSequence;  "Sequence on other chrom (or edit list, or empty)"
+    string   oCDS;       "CDS in NCBI format"
     uint    oBlock;     "Block number on other sequence"
 
     uint match;        "Number of bases matched."
-    unsigned misMatch; " Number of bases that don't match "
-    unsigned repMatch; " Number of bases that match but are part of repeats "
-    unsigned nCount;   " Number of 'N' bases "
+    uint misMatch; " Number of bases that don't match "
+    uint repMatch; " Number of bases that match but are part of repeats "
+    uint nCount;   " Number of 'N' bases "
     )