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/gisaid/gisaidTable/getSeq.c src/hg/gisaid/gisaidTable/getSeq.c
index 0df055f..2c0f223 100644
--- src/hg/gisaid/gisaidTable/getSeq.c
+++ src/hg/gisaid/gisaidTable/getSeq.c
@@ -1,100 +1,100 @@
 /* getSeq - pages to get protein and nucleic acid sequence. */
 
 /* 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. */
 
 #include "common.h"
 #include "jksql.h"
 #include "cart.h"
 #include "dnautil.h"
 #include "hdb.h"
 #include "cheapcgi.h"
 #include "hPrint.h"
 #include "gisaidTable.h"
 
 
 
 static void getSeqFromBlob(struct sqlConnection *conn,
         struct subjInfo *siList, char *tableName, char *xrefField)
 /* Get sequence from blob field in table and print it as fasta. */
 {
 struct sqlResult *sr;
 char **row;
 char query[256];
 struct subjInfo *si;
 int seqCnt = 0;
 hPrintf("<TT><PRE>");
 for (si = siList; si != NULL; si = si->next)
     {
     char *subjId = si->fields[1];
     /* currently just 3 Thailand or 4 US */
     sqlSafef(query, sizeof(query),
         "select id, seq from %s s, gisaidXref g where g.subjId='%s' and g.%s=s.id", 
 	tableName, subjId, xrefField);
     sr = sqlGetResult(conn, query);
     while ((row = sqlNextRow(sr)) != NULL)
         {
         char *id = row[0];
         char *seq = row[1];
         hPrintf(">%s", id);
         hPrintf(":%s\n", subjId);
         writeSeqWithBreaks(stdout, seq, strlen(seq), 60);
         hPrintf("\n");
 	seqCnt++;
         }
     sqlFreeResult(&sr);
     }
 if (seqCnt == 0) hPrintf("No sequence data available for subject(s) selected.");
 hPrintf("</TT></PRE>");
 }
 
 
 static void getProtein( struct sqlConnection *conn, struct subjInfo *siList)
 /* Print out proteins. */
 {
 getSeqFromBlob(conn, siList, "aaSeq", "aaSeqId");
 }
 
 static void getGenomic( struct sqlConnection *conn, struct subjInfo *siList)
 /* Print out dna. */
 {
 getSeqFromBlob(conn, siList, "dnaSeq", "dnaSeqId");
 }
 
 void doGetSeq(struct sqlConnection *conn, 
         struct subjInfo *siList, char *how)
 /* Put up the get sequence page. */
 {
 if (sameString(how, "protein"))
     getProtein(conn, siList);
 else if (sameString(how, "genomic"))
     getGenomic(conn, siList);
 else
     errAbort("Unrecognized %s value %s", getSeqHowVarName, how);
 }
 
 static void howRadioButton(char *how)
 /* Put up a getSeqHow radio button. */
 {
 char *howName = getSeqHowVarName;
 char *oldVal = cartUsualString(cart, howName, "protein");
 cgiMakeRadioButton(howName, how, sameString(how, oldVal));
 }
 
 
 
 void doGetSeqPage(struct sqlConnection *conn, struct column *colList)
 /* Put up the get sequence page asking how to get sequence. */
 {
 hPrintf("<H2>Get Sequence</H2>");
 hPrintf("<FORM ACTION=\"../cgi-bin/gisaidTable\" METHOD=GET>\n");
 cartSaveSession(cart);
 hPrintf("Select sequence type:<BR>\n");
 howRadioButton("protein");
 hPrintf("Protein<BR>\n");
 howRadioButton("genomic");
 hPrintf("Genomic<BR>\n");
 cgiMakeButton(getSeqVarName, "get sequence");
 hPrintf("</FORM>\n");
 }