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/makeDb/outside/hgLoadEranModules/esMotif.c src/hg/makeDb/outside/hgLoadEranModules/esMotif.c
index 21e1ca4..14d8f4b 100644
--- src/hg/makeDb/outside/hgLoadEranModules/esMotif.c
+++ src/hg/makeDb/outside/hgLoadEranModules/esMotif.c
@@ -1,249 +1,249 @@
 /* esm.c autoXml generated file */
 
 /* Copyright (C) 2006 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. */
 
 #include "common.h"
 #include "xap.h"
 #include "esMotif.h"
 
 void *esmStartHandler(struct xap *xp, char *name, char **atts);
 /* Called by expat with start tag.  Does most of the parsing work. */
 
 void esmEndHandler(struct xap *xp, char *name);
 /* Called by expat with end tag.  Checks all required children are loaded. */
 
 
 void esmMotifsSave(struct esmMotifs *obj, int indent, FILE *f)
 /* Save esmMotifs to file. */
 {
 struct esmMotif *esmMotif;
 boolean isNode = TRUE;
 if (obj == NULL) return;
 xapIndent(indent, f);
 fprintf(f, "<Motifs");
 fprintf(f, " SeqFile=\"%s\"", obj->SeqFile);
 fprintf(f, ">");
 for (esmMotif = obj->esmMotif; esmMotif != NULL; esmMotif = esmMotif->next)
    {
    if (isNode)
        {
        fprintf(f, "\n");
        isNode = FALSE;
        }
    esmMotifSave(esmMotif, indent+2, f);
    }
 if (!isNode)
     xapIndent(indent, f);
 fprintf(f, "</Motifs>\n");
 }
 
 struct esmMotifs *esmMotifsLoad(char *fileName)
 /* Load esmMotifs from file. */
 {
 struct esmMotifs *obj;
 xapParseAny(fileName, "Motifs", esmStartHandler, esmEndHandler, NULL, &obj);
 return obj;
 }
 
 void esmMotifSave(struct esmMotif *obj, int indent, FILE *f)
 /* Save esmMotif to file. */
 {
 if (obj == NULL) return;
 xapIndent(indent, f);
 fprintf(f, "<Motif");
 fprintf(f, " Consensus=\"%s\"", obj->Consensus);
 fprintf(f, " Source=\"%s\"", obj->Source);
 fprintf(f, " Name=\"%s\"", obj->Name);
 if (obj->Description != NULL)
     fprintf(f, " Description=\"%s\"", obj->Description);
 fprintf(f, ">");
 fprintf(f, "\n");
 esmWeightsSave(obj->esmWeights, indent+2, f);
 xapIndent(indent, f);
 fprintf(f, "</Motif>\n");
 }
 
 struct esmMotif *esmMotifLoad(char *fileName)
 /* Load esmMotif from file. */
 {
 struct esmMotif *obj;
 xapParseAny(fileName, "Motif", esmStartHandler, esmEndHandler, NULL, &obj);
 return obj;
 }
 
 void esmWeightsSave(struct esmWeights *obj, int indent, FILE *f)
 /* Save esmWeights to file. */
 {
 struct esmPosition *esmPosition;
 if (obj == NULL) return;
 xapIndent(indent, f);
 fprintf(f, "<Weights");
 fprintf(f, " ZeroWeight=\"%f\"", obj->ZeroWeight);
 fprintf(f, ">");
 fprintf(f, "\n");
 for (esmPosition = obj->esmPosition; esmPosition != NULL; esmPosition = esmPosition->next)
    {
    esmPositionSave(esmPosition, indent+2, f);
    }
 xapIndent(indent, f);
 fprintf(f, "</Weights>\n");
 }
 
 struct esmWeights *esmWeightsLoad(char *fileName)
 /* Load esmWeights from file. */
 {
 struct esmWeights *obj;
 xapParseAny(fileName, "Weights", esmStartHandler, esmEndHandler, NULL, &obj);
 return obj;
 }
 
 void esmPositionSave(struct esmPosition *obj, int indent, FILE *f)
 /* Save esmPosition to file. */
 {
 if (obj == NULL) return;
 xapIndent(indent, f);
 fprintf(f, "<Position");
 fprintf(f, " Num=\"%d\"", obj->Num);
 fprintf(f, " Weights=\"%s\"", obj->Weights);
 fprintf(f, "->\n");
 }
 
 struct esmPosition *esmPositionLoad(char *fileName)
 /* Load esmPosition from file. */
 {
 struct esmPosition *obj;
 xapParseAny(fileName, "Position", esmStartHandler, esmEndHandler, NULL, &obj);
 return obj;
 }
 
 void *esmStartHandler(struct xap *xp, char *name, char **atts)
 /* Called by expat with start tag.  Does most of the parsing work. */
 {
 struct xapStack *st = xp->stack+1;
 int depth = xp->stackDepth;
 int i;
 
 if (sameString(name, "Motifs"))
     {
     struct esmMotifs *obj;
     AllocVar(obj);
     for (i=0; atts[i] != NULL; i += 2)
         {
         char *name = atts[i], *val = atts[i+1];
         if  (sameString(name, "SeqFile"))
             obj->SeqFile = cloneString(val);
         }
     if (obj->SeqFile == NULL)
         xapError(xp, "missing SeqFile");
     return obj;
     }
 else if (sameString(name, "Motif"))
     {
     struct esmMotif *obj;
     AllocVar(obj);
     for (i=0; atts[i] != NULL; i += 2)
         {
         char *name = atts[i], *val = atts[i+1];
         if  (sameString(name, "Consensus"))
             obj->Consensus = cloneString(val);
         else if (sameString(name, "Source"))
             obj->Source = cloneString(val);
         else if (sameString(name, "Name"))
             obj->Name = cloneString(val);
         else if (sameString(name, "Description"))
             obj->Description = cloneString(val);
         }
     if (obj->Consensus == NULL)
         xapError(xp, "missing Consensus");
     if (obj->Source == NULL)
         xapError(xp, "missing Source");
     if (obj->Name == NULL)
         xapError(xp, "missing Name");
     if (depth > 1)
         {
         if  (sameString(st->elName, "Motifs"))
             {
             struct esmMotifs *parent = st->object;
             slAddHead(&parent->esmMotif, obj);
             }
         }
     return obj;
     }
 else if (sameString(name, "Weights"))
     {
     struct esmWeights *obj;
     AllocVar(obj);
     for (i=0; atts[i] != NULL; i += 2)
         {
         char *name = atts[i], *val = atts[i+1];
         if  (sameString(name, "ZeroWeight"))
             obj->ZeroWeight = atof(val);
         }
     if (depth > 1)
         {
         if  (sameString(st->elName, "Motif"))
             {
             struct esmMotif *parent = st->object;
             slAddHead(&parent->esmWeights, obj);
             }
         }
     return obj;
     }
 else if (sameString(name, "Position"))
     {
     struct esmPosition *obj;
     AllocVar(obj);
     for (i=0; atts[i] != NULL; i += 2)
         {
         char *name = atts[i], *val = atts[i+1];
         if  (sameString(name, "Num"))
             obj->Num = atoi(val);
         else if (sameString(name, "Weights"))
             obj->Weights = cloneString(val);
         }
     if (obj->Weights == NULL)
         xapError(xp, "missing Weights");
     if (depth > 1)
         {
         if  (sameString(st->elName, "Weights"))
             {
             struct esmWeights *parent = st->object;
             slAddHead(&parent->esmPosition, obj);
             }
         }
     return obj;
     }
 else
     {
     xapSkip(xp);
     return NULL;
     }
 }
 
 void esmEndHandler(struct xap *xp, char *name)
 /* Called by expat with end tag.  Checks all required children are loaded. */
 {
 struct xapStack *stack = xp->stack;
 if (sameString(name, "Motifs"))
     {
     struct esmMotifs *obj = stack->object;
     slReverse(&obj->esmMotif);
     }
 else if (sameString(name, "Motif"))
     {
     struct esmMotif *obj = stack->object;
     if (obj->esmWeights == NULL)
         xapError(xp, "Missing Weights");
     if (obj->esmWeights->next != NULL)
         xapError(xp, "Multiple Weights");
     }
 else if (sameString(name, "Weights"))
     {
     struct esmWeights *obj = stack->object;
     if (obj->esmPosition == NULL)
         xapError(xp, "Missing Position");
     slReverse(&obj->esmPosition);
     }
 }