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/genbank.h src/hg/inc/genbank.h
index 87b875e..884b34d 100644
--- src/hg/inc/genbank.h
+++ src/hg/inc/genbank.h
@@ -1,103 +1,103 @@
 /* genbank.h - Various functions for dealing with genbank data */
 
 /* Copyright (C) 2008 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 GENBANK_H
 #define GENBANK_H
 
 /* buffer size for a genbank or refseq accession, with version */
 #define GENBANK_ACC_BUFSZ 24
 
 #ifndef HASH_H
 #include "hash.h"
 #endif
 
 #ifndef LINEFILE_H
 #include "linefile.h"
 #endif
 struct psl;
 
 struct genbankCds
 /* structure return information about parsed CDS */
 {
     int start;                    /* start, in [0..n) coords */
     int end;                      /* end, in [0..n) coords */
     boolean startComplete;        /* is start complete? */ 
     boolean endComplete;          /* is end complete? */ 
     boolean complement;           /* is on reverse strand */
 };
 
 boolean genbankCdsParse(char *cdsStr, struct genbankCds* cds);
 /* Parse a genbank CDS, returning TRUE if it can be successfuly parsed, FALSE
  * if there are problems.  If a join() is specified, the first and last
  * coordinates are used for the CDS.  Incomplete CDS specifications will still
  * return the start or end.  start/end are set to 0 on error. */
 
 boolean genbankParseCds(char *cdsStr, unsigned *cdsStart, unsigned *cdsEnd);
 /* Compatiblity function, genbankCdsParse is prefered. Parse a genbank CDS,
  * returning TRUE if it can be successfuly parsed, FALSE if there are
  * problems.  If a join() is specified, the first and last coordinates are
  * used for the CDS.  Incomplete CDS specifications will still return the
  * start or end.  cdsStart and cdsEnd are set to -1 on error.
  */
 
 struct genbankCds genbankCdsToGenome(struct genbankCds* cds, struct psl *psl);
 /* Convert set cdsStart/end from mrna to genomic coordinates using an
  * alignment.  Returns a genbankCds object with genomic (positive strand)
  * coordinates */
 
 boolean genbankIsRefSeqAcc(char *acc);
 /* determine if a accession appears to be from RefSeq */
 
 boolean genbankIsRefSeqCodingMRnaAcc(char *acc);
 /* determine if a accession appears to be a protein-coding RefSeq
  * accession. */
 
 boolean genbankIsRefSeqNonCodingMRnaAcc(char *acc);
 /* determine if a accession appears to be a non-protein-coding RefSeq
  * accession. */
 
 char* genbankDropVer(char *outAcc, char *inAcc);
 /* strip the version from a genbank id.  Input and output
  * strings maybe the same. acc length is checked against
  * GENBANK_ACC_BUFSZ. */
 
 void genbankExceptionsHash(char *fileName, 
 	struct hash **retSelenocysteineHash, struct hash **retAltStartHash);
 /* Will read a genbank exceptions file, and return two hashes parsed out of
  * it filled with the accessions having the two exceptions we can handle, 
  * selenocysteines, and alternative start codons. */
 
 
 extern char *gbCdnaInfoTable;       
 extern char *descriptionTable;       
 extern char *productNameTable;       
 extern char *organismTable;       
 extern char *authorTable;       
 extern char *cdsTable;       
 extern char *tissueTable;       
 extern char *developmentTable;       
 extern char *geneNameTable;       
 extern char *refLinkTable;       
 extern char *refPepTable;       
 extern char *cellTable;       
 extern char *sourceTable;
 extern char *libraryTable;
 extern char *mrnaCloneTable;
 extern char *sexTable;
 extern char *keywordTable;
 extern char *gbSeqTable;
 extern char *gbExtFileTable;
 extern char *gbMiscDiffTable;
 extern char *imageCloneTable;
 extern char *gbWarnTable;
 extern char *refSeqStatusTable;
 extern char *refSeqSummaryTable;
 
 void initGenbankTableNames(char *database);
 /* read hg.conf to get alternate table names */
 
 boolean isGenbankPatentAccession(char *acc);
 /* Is this an accession prefix allocated to patent sequences. */
 
 #endif