e70152e44cc66cc599ff6b699eb8adc07f3e656a
kent
  Sat May 24 21:09:34 2014 -0700
Adding Copyright NNNN Regents of the University of California to all files I believe with reasonable certainty were developed under UCSC employ or as part of Genome Browser copyright assignment.
diff --git src/hg/inc/bgiSnp.h src/hg/inc/bgiSnp.h
index 0e51cd0..64bd344 100644
--- src/hg/inc/bgiSnp.h
+++ src/hg/inc/bgiSnp.h
@@ -1,79 +1,82 @@
 /* bgiSnp.h was originally generated by the autoSql program, which also 
  * generated bgiSnp.c and bgiSnp.sql.  This header links the database and
  * the RAM representation of objects. */
 
+/* Copyright (C) 2004 The Regents of the University of California 
+ * See README in this or parent directory for licensing information. */
+
 #ifndef BGISNP_H
 #define BGISNP_H
 
 #define BGISNP_NUM_COLS 19
 
 struct bgiSnp
 /* Beijing Genomics Institute SNP information as bed 4 + */
     {
     struct bgiSnp *next;  /* Next in singly linked list. */
     char *chrom;	/* Chromosome */
     unsigned chromStart;	/* Start position in chromosome */
     unsigned chromEnd;	/* End position in chromosome */
     char *name;	/* BGI SNP name: snp.superctg.ctg.pos.type.strainID */
     char snpType[2];	/* S (substitution), I (insertion), or D (deletion) */
     unsigned readStart;	/* Start position in alternate allele read */
     unsigned readEnd;	/* End position in alternate allele read */
     unsigned qualChr;	/* Quality score in reference assembly */
     unsigned qualReads;	/* Quality score in alternate allele read */
     char *snpSeq;	/* 'X->Y' or indel sequence */
     char *readName;	/* Name of alternate allele read */
     char readDir[2];	/* Direction of read relative to reference */
     char inBroiler[5];	/* SNP found in Broiler strain? yes, no or n/a if not covered */
     char inLayer[5];	/* SNP found in Layer strain? yes, no or n/a if not covered */
     char inSilkie[5];	/* SNP found in Silkie strain? yes, no or n/a if not covered */
     char *primerL;	/* Left primer sequence */
     char *primerR;	/* Right primer sequence */
     char questionM[2];	/* L for dubious indels, H for other indels and SNPs */
     char *extra;	/* Additional information */
     };
 
 void bgiSnpStaticLoad(char **row, struct bgiSnp *ret);
 /* Load a row from bgiSnp table into ret.  The contents of ret will
  * be replaced at the next call to this function. */
 
 struct bgiSnp *bgiSnpLoad(char **row);
 /* Load a bgiSnp from row fetched with select * from bgiSnp
  * from database.  Dispose of this with bgiSnpFree(). */
 
 struct bgiSnp *bgiSnpLoadAll(char *fileName);
 /* Load all bgiSnp from whitespace-separated file.
  * Dispose of this with bgiSnpFreeList(). */
 
 struct bgiSnp *bgiSnpLoadAllByChar(char *fileName, char chopper);
 /* Load all bgiSnp from chopper separated file.
  * Dispose of this with bgiSnpFreeList(). */
 
 #define bgiSnpLoadAllByTab(a) bgiSnpLoadAllByChar(a, '\t');
 /* Load all bgiSnp from tab separated file.
  * Dispose of this with bgiSnpFreeList(). */
 
 struct bgiSnp *bgiSnpCommaIn(char **pS, struct bgiSnp *ret);
 /* Create a bgiSnp out of a comma separated string. 
  * This will fill in ret if non-null, otherwise will
  * return a new bgiSnp */
 
 void bgiSnpFree(struct bgiSnp **pEl);
 /* Free a single dynamically allocated bgiSnp such as created
  * with bgiSnpLoad(). */
 
 void bgiSnpFreeList(struct bgiSnp **pList);
 /* Free a list of dynamically allocated bgiSnp's */
 
 void bgiSnpOutput(struct bgiSnp *el, FILE *f, char sep, char lastSep);
 /* Print out bgiSnp.  Separate fields with sep. Follow last field with lastSep. */
 
 #define bgiSnpTabOut(el,f) bgiSnpOutput(el,f,'\t','\n');
 /* Print out bgiSnp as a line in a tab-separated file. */
 
 #define bgiSnpCommaOut(el,f) bgiSnpOutput(el,f,',',',');
 /* Print out bgiSnp as a comma separated list including final comma. */
 
 /* -------------------------------- End autoSql Generated Code -------------------------------- */
 
 #endif /* BGISNP_H */