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/hapmapLd.h src/hg/inc/hapmapLd.h index 6361abc..3be612b 100644 --- src/hg/inc/hapmapLd.h +++ src/hg/inc/hapmapLd.h @@ -1,86 +1,89 @@ /* hapmapLd.h was originally generated by the autoSql program, which also * generated hapmapLd.c and hapmapLd.sql. This header links the database and * the RAM representation of objects. */ +/* Copyright (C) 2013 The Regents of the University of California + * See README in this or parent directory for licensing information. */ + #ifndef HAPMAPLD_H #define HAPMAPLD_H #ifndef JKSQL_H #include "jksql.h" #endif #define HAPMAPLD_NUM_COLS 8 struct hapmapLd /* Linkage Disequilibrium values from the HapMap project */ { struct hapmapLd *next; /* Next in singly linked list. */ char *chrom; /* Chromosome */ unsigned chromStart; /* chromStart for reference marker */ unsigned chromEnd; /* chromEnd for last marker in list */ char *name; /* rsId at chromStart */ unsigned score; /* Number of markers with LD values */ char *dprime; /* Encoded lists of D' values */ char *rsquared; /* Encoded lists of r^2 values */ char *lod; /* Encoded lists of LOD values */ }; void hapmapLdStaticLoad(char **row, struct hapmapLd *ret); /* Load a row from hapmapLd table into ret. The contents of ret will * be replaced at the next call to this function. */ struct hapmapLd *hapmapLdLoad(char **row); /* Load a hapmapLd from row fetched with select * from hapmapLd * from database. Dispose of this with hapmapLdFree(). */ struct hapmapLd *hapmapLdLoadAll(char *fileName); /* Load all hapmapLd from whitespace-separated file. * Dispose of this with hapmapLdFreeList(). */ struct hapmapLd *hapmapLdLoadAllByChar(char *fileName, char chopper); /* Load all hapmapLd from chopper separated file. * Dispose of this with hapmapLdFreeList(). */ #define hapmapLdLoadAllByTab(a) hapmapLdLoadAllByChar(a, '\t'); /* Load all hapmapLd from tab separated file. * Dispose of this with hapmapLdFreeList(). */ struct hapmapLd *hapmapLdLoadByQuery(struct sqlConnection *conn, char *query); /* Load all hapmapLd from table that satisfy the query given. * Where query is of the form 'select * from example where something=something' * or 'select example.* from example, anotherTable where example.something = * anotherTable.something'. * Dispose of this with hapmapLdFreeList(). */ void hapmapLdSaveToDb(struct sqlConnection *conn, struct hapmapLd *el, char *tableName, int updateSize); /* Save hapmapLd as a row to the table specified by tableName. * As blob fields may be arbitrary size updateSize specifies the approx size * of a string that would contain the entire query. Arrays of native types are * converted to comma separated strings and loaded as such, User defined types are * inserted as NULL. Strings are automatically escaped to allow insertion into the database. */ struct hapmapLd *hapmapLdCommaIn(char **pS, struct hapmapLd *ret); /* Create a hapmapLd out of a comma separated string. * This will fill in ret if non-null, otherwise will * return a new hapmapLd */ void hapmapLdFree(struct hapmapLd **pEl); /* Free a single dynamically allocated hapmapLd such as created * with hapmapLdLoad(). */ void hapmapLdFreeList(struct hapmapLd **pList); /* Free a list of dynamically allocated hapmapLd's */ void hapmapLdOutput(struct hapmapLd *el, FILE *f, char sep, char lastSep); /* Print out hapmapLd. Separate fields with sep. Follow last field with lastSep. */ #define hapmapLdTabOut(el,f) hapmapLdOutput(el,f,'\t','\n'); /* Print out hapmapLd as a line in a tab-separated file. */ #define hapmapLdCommaOut(el,f) hapmapLdOutput(el,f,',',','); /* Print out hapmapLd as a comma separated list including final comma. */ /* -------------------------------- End autoSql Generated Code -------------------------------- */ #endif /* HAPMAPLD_H */