06845edb9038bb632170891cebcdc8f477f2ea8d
angie
  Fri Dec 4 08:59:38 2015 -0800
Add dbNSFP v3.1a (including VEST scores) to hg38 for hgVai.
Add hgVai options for adding in transcript status info: GENCODE tags
when applicable, knownCanonical for knownGene, refSeqStatus for refGene.
refs #16502, #16503

diff --git src/hg/lib/dbNsfpSift.as src/hg/lib/dbNsfpSift.as
index 4e8f997..caccefb 100644
--- src/hg/lib/dbNsfpSift.as
+++ src/hg/lib/dbNsfpSift.as
@@ -1,15 +1,15 @@
 table dbNsfpSift
 "SIFT scores provided by dbNSFP (http://dbnsfp.houstonbioinformatics.org/)"
     (
     string chrom;      "Reference sequence chromosome or scaffold"
     uint   chromStart; "Start position in chromosome"
     uint   chromEnd;   "End position in chromosome"
     enum('A','C','G','T') refAl;   "Allele found in reference assembly"
     lstring ensTxId;   "Ensembl transcript ID(s), if dbNSFP has data for >1 transcript set at this position; otherwise '.' to save space"
     enum('A','C','G','T') altAl1;     "alternate allele #1"
-    string score1;      "SIFT score for altAl1 (or '.' if n/a): < 0.05 is 'Damaging', otherwise 'Tolerated'"
+    lstring score1;     "SIFT score for altAl1 (or '.' if n/a): < 0.05 is 'Damaging', otherwise 'Tolerated'"
     enum('A','C','G','T','.') altAl2; "alternate allele #2"
-    string score2;      "SIFT score for altAl2 (or '.' if n/a): < 0.05 is 'Damaging', otherwise 'Tolerated'"
+    lstring score2;     "SIFT score for altAl2 (or '.' if n/a): < 0.05 is 'Damaging', otherwise 'Tolerated'"
     enum('A','C','G','T','.') altAl3; "alternate allele #3"
-    string score3;      "SIFT score for altAl3 (or '.' if n/a): < 0.05 is 'Damaging', otherwise 'Tolerated'"
+    lstring score3;     "SIFT score for altAl3 (or '.' if n/a): < 0.05 is 'Damaging', otherwise 'Tolerated'"
     )