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/lib/humanParalog.c src/hg/lib/humanParalog.c index 67bb31c..1ac1a8a 100644 --- src/hg/lib/humanParalog.c +++ src/hg/lib/humanParalog.c @@ -1,161 +1,164 @@ /* humanParalog.c was originally generated by the autoSql program, which also * generated humanParalog.h and humanParalog.sql. This module links the database and * the RAM representation of objects. */ +/* Copyright (C) 2014 The Regents of the University of California + * See README in this or parent directory for licensing information. */ + #include "common.h" #include "linefile.h" #include "dystring.h" #include "jksql.h" #include "humanParalog.h" void humanParalogStaticLoad(char **row, struct humanParalog *ret) /* Load a row from humanParalog table into ret. The contents of ret will * be replaced at the next call to this function. */ { ret->chrom = row[0]; ret->chromStart = sqlUnsigned(row[1]); ret->chromEnd = sqlUnsigned(row[2]); ret->name = row[3]; ret->score = sqlUnsigned(row[4]); ret->strand = row[5]; ret->thickStart = sqlUnsigned(row[6]); ret->thickEnd = sqlUnsigned(row[7]); } struct humanParalog *humanParalogLoad(char **row) /* Load a humanParalog from row fetched with select * from humanParalog * from database. Dispose of this with humanParalogFree(). */ { struct humanParalog *ret; AllocVar(ret); ret->chrom = cloneString(row[0]); ret->chromStart = sqlUnsigned(row[1]); ret->chromEnd = sqlUnsigned(row[2]); ret->name = cloneString(row[3]); ret->score = sqlUnsigned(row[4]); ret->strand = cloneString(row[5]); ret->thickStart = sqlUnsigned(row[6]); ret->thickEnd = sqlUnsigned(row[7]); return ret; } struct humanParalog *humanParalogLoadAll(char *fileName) /* Load all humanParalog from a tab-separated file. * Dispose of this with humanParalogFreeList(). */ { struct humanParalog *list = NULL, *el; struct lineFile *lf = lineFileOpen(fileName, TRUE); char *row[8]; while (lineFileRow(lf, row)) { el = humanParalogLoad(row); slAddHead(&list, el); } lineFileClose(&lf); slReverse(&list); return list; } struct humanParalog *humanParalogLoadWhere(struct sqlConnection *conn, char *table, char *where) /* Load all humanParalog from table that satisfy where clause. The * where clause may be NULL in which case whole table is loaded * Dispose of this with humanParalogFreeList(). */ { struct humanParalog *list = NULL, *el; struct dyString *query = dyStringNew(256); struct sqlResult *sr; char **row; sqlDyStringPrintf(query, "select * from %s", table); if (where != NULL) dyStringPrintf(query, " where %s", where); sr = sqlGetResult(conn, query->string); while ((row = sqlNextRow(sr)) != NULL) { el = humanParalogLoad(row); slAddHead(&list, el); } slReverse(&list); sqlFreeResult(&sr); dyStringFree(&query); return list; } struct humanParalog *humanParalogCommaIn(char **pS, struct humanParalog *ret) /* Create a humanParalog out of a comma separated string. * This will fill in ret if non-null, otherwise will * return a new humanParalog */ { char *s = *pS; if (ret == NULL) AllocVar(ret); ret->chrom = sqlStringComma(&s); ret->chromStart = sqlUnsignedComma(&s); ret->chromEnd = sqlUnsignedComma(&s); ret->name = sqlStringComma(&s); ret->score = sqlUnsignedComma(&s); ret->strand = sqlStringComma(&s); ret->thickStart = sqlUnsignedComma(&s); ret->thickEnd = sqlUnsignedComma(&s); *pS = s; return ret; } void humanParalogFree(struct humanParalog **pEl) /* Free a single dynamically allocated humanParalog such as created * with humanParalogLoad(). */ { struct humanParalog *el; if ((el = *pEl) == NULL) return; freeMem(el->chrom); freeMem(el->name); freeMem(el->strand); freez(pEl); } void humanParalogFreeList(struct humanParalog **pList) /* Free a list of dynamically allocated humanParalog's */ { struct humanParalog *el, *next; for (el = *pList; el != NULL; el = next) { next = el->next; humanParalogFree(&el); } *pList = NULL; } void humanParalogOutput(struct humanParalog *el, FILE *f, char sep, char lastSep) /* Print out humanParalog. Separate fields with sep. Follow last field with lastSep. */ { if (sep == ',') fputc('"',f); fprintf(f, "%s", el->chrom); if (sep == ',') fputc('"',f); fputc(sep,f); fprintf(f, "%u", el->chromStart); fputc(sep,f); fprintf(f, "%u", el->chromEnd); fputc(sep,f); if (sep == ',') fputc('"',f); fprintf(f, "%s", el->name); if (sep == ',') fputc('"',f); fputc(sep,f); fprintf(f, "%u", el->score); fputc(sep,f); if (sep == ',') fputc('"',f); fprintf(f, "%s", el->strand); if (sep == ',') fputc('"',f); fputc(sep,f); fprintf(f, "%u", el->thickStart); fputc(sep,f); fprintf(f, "%u", el->thickEnd); fputc(lastSep,f); }