533112afe2a2005e80cdb1f82904ea65032d4302 braney Sat Oct 2 11:37:34 2021 -0700 split hg/lib into two separate libaries, one only used by the cgis diff --git src/hg/lib/jaxQTL.c src/hg/lib/jaxQTL.c deleted file mode 100644 index 0261d65..0000000 --- src/hg/lib/jaxQTL.c +++ /dev/null @@ -1,182 +0,0 @@ -/* jaxQTL.c was originally generated by the autoSql program, which also - * generated jaxQTL.h and jaxQTL.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 "jaxQTL.h" - - -void jaxQTLStaticLoad(char **row, struct jaxQTL *ret) -/* Load a row from jaxQTL 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]); -strcpy(ret->strand, row[5]); -ret->marker = row[6]; -ret->mgiID = row[7]; -ret->description = row[8]; -ret->cMscore = atof(row[9]); -} - -struct jaxQTL *jaxQTLLoad(char **row) -/* Load a jaxQTL from row fetched with select * from jaxQTL - * from database. Dispose of this with jaxQTLFree(). */ -{ -struct jaxQTL *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]); -strcpy(ret->strand, row[5]); -ret->marker = cloneString(row[6]); -ret->mgiID = cloneString(row[7]); -ret->description = cloneString(row[8]); -ret->cMscore = atof(row[9]); -return ret; -} - -struct jaxQTL *jaxQTLLoadAll(char *fileName) -/* Load all jaxQTL from a tab-separated file. - * Dispose of this with jaxQTLFreeList(). */ -{ -struct jaxQTL *list = NULL, *el; -struct lineFile *lf = lineFileOpen(fileName, TRUE); -char *row[10]; - -while (lineFileRow(lf, row)) - { - el = jaxQTLLoad(row); - slAddHead(&list, el); - } -lineFileClose(&lf); -slReverse(&list); -return list; -} - -struct jaxQTL *jaxQTLLoadWhere(struct sqlConnection *conn, char *table, char *where) -/* Load all jaxQTL from table that satisfy where clause. The - * where clause may be NULL in which case whole table is loaded - * Dispose of this with jaxQTLFreeList(). */ -{ -struct jaxQTL *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 = jaxQTLLoad(row); - slAddHead(&list, el); - } -slReverse(&list); -sqlFreeResult(&sr); -dyStringFree(&query); -return list; -} - -struct jaxQTL *jaxQTLCommaIn(char **pS, struct jaxQTL *ret) -/* Create a jaxQTL out of a comma separated string. - * This will fill in ret if non-null, otherwise will - * return a new jaxQTL */ -{ -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); -sqlFixedStringComma(&s, ret->strand, sizeof(ret->strand)); -ret->marker = sqlStringComma(&s); -ret->mgiID = sqlStringComma(&s); -ret->description = sqlStringComma(&s); -ret->cMscore = sqlFloatComma(&s); -*pS = s; -return ret; -} - -void jaxQTLFree(struct jaxQTL **pEl) -/* Free a single dynamically allocated jaxQTL such as created - * with jaxQTLLoad(). */ -{ -struct jaxQTL *el; - -if ((el = *pEl) == NULL) return; -freeMem(el->chrom); -freeMem(el->name); -freeMem(el->marker); -freeMem(el->mgiID); -freeMem(el->description); -freez(pEl); -} - -void jaxQTLFreeList(struct jaxQTL **pList) -/* Free a list of dynamically allocated jaxQTL's */ -{ -struct jaxQTL *el, *next; - -for (el = *pList; el != NULL; el = next) - { - next = el->next; - jaxQTLFree(&el); - } -*pList = NULL; -} - -void jaxQTLOutput(struct jaxQTL *el, FILE *f, char sep, char lastSep) -/* Print out jaxQTL. 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); -if (sep == ',') fputc('"',f); -fprintf(f, "%s", el->marker); -if (sep == ',') fputc('"',f); -fputc(sep,f); -if (sep == ',') fputc('"',f); -fprintf(f, "%s", el->mgiID); -if (sep == ',') fputc('"',f); -fputc(sep,f); -if (sep == ',') fputc('"',f); -fprintf(f, "%s", el->description); -if (sep == ',') fputc('"',f); -fputc(sep,f); -fprintf(f, "%f", el->cMscore); -fputc(lastSep,f); -} -