4898794edd81be5285ea6e544acbedeaeb31bf78
max
  Tue Nov 23 08:10:57 2021 -0800
Fixing pointers to README file for license in all source code files. refs #27614

diff --git src/hg/inc/annoGratorGpVar.h src/hg/inc/annoGratorGpVar.h
index 43ab56d..7e97196 100644
--- src/hg/inc/annoGratorGpVar.h
+++ src/hg/inc/annoGratorGpVar.h
@@ -1,48 +1,48 @@
 /* annoGratorGpVar -- integrate pgSNP or VCF with gene pred and make gpFx predictions */
 
 /* Copyright (C) 2013 The Regents of the University of California 
- * See README in this or parent directory for licensing information. */
+ * See kent/LICENSE or http://genome.ucsc.edu/license/ for licensing information. */
 
 #ifndef ANNOGRATORGPVAR_H
 #define ANNOGRATORGPVAR_H
 
 #include "annoGrator.h"
 
 struct annoGratorGpVarFuncFilter
     {
     boolean intergenic;		// Include variants not close to any gene
     boolean upDownstream;	// Include variants upstream or downstream of gene
     boolean nmdTranscript;	// Include variants in transcripts already subject to NMD
     boolean exonLoss;		// Include variants that cause exon loss
     boolean utr;		// Include variants in 5' or 3' UTR
     boolean cdsSyn;		// Include synonymous variants in CDS
     boolean cdsNonSyn;		// Include non-synonymous variants in CDS
     boolean intron;		// Include variants in intron
     boolean splice;		// Include variants in splice site or splice region
     boolean nonCodingExon;	// Include variants in exons of non-coding genes
     boolean noVariation;	// Include "variants" that are actually not variants
     };
 
 struct annoGrator *annoGratorGpVarNew(struct annoStreamer *mySource);
 /* Make a subclass of annoGrator that combines genePreds from mySource with
  * pgSnp rows from primary source to predict functional effects of variants
  * on genes.
  * mySource becomes property of the new annoGrator (don't close it, close annoGrator). */
 
 void annoGratorGpVarSetFuncFilter(struct annoGrator *gpVar,
 				  struct annoGratorGpVarFuncFilter *funcFilter);
 /* If funcFilter is non-NULL, it specifies which functional categories
  * to include in output; if NULL, by default intergenic variants are excluded and
  * all other categories are included.
  * NOTE: This calls gSelf->setOverlapRule() with the currently set overlap rule because
  * overlapRule is affected by filter settings.  */
 
 struct gpFx *annoGratorGpVarGpFxFromRow(struct annoStreamer *gpVar, struct annoRow *row,
 					struct lm *lm);
 // Turn the string array representation back into a real gpFx.
 // I know this is inefficient and am thinking about a better way.
 
 void annoGratorGpVarSetHgvsOutOptions(struct annoGrator *gSelf, uint hgvsOutOptions);
 /* Import the HGVS output options described in hgHgvs.h */
 
 #endif /* ANNOGRATORGPVAR_H*/