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/cgilib/vntr.c src/hg/cgilib/vntr.c new file mode 100644 index 0000000..7d99a9f --- /dev/null +++ src/hg/cgilib/vntr.c @@ -0,0 +1,175 @@ +/* vntr.c was originally generated by the autoSql program, which also + * generated vntr.h and vntr.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 "vntr.h" + + +void vntrStaticLoad(char **row, struct vntr *ret) +/* Load a row from vntr 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->repeatCount = atof(row[4]); +ret->distanceToLast = sqlSigned(row[5]); +ret->distanceToNext = sqlSigned(row[6]); +ret->forwardPrimer = row[7]; +ret->reversePrimer = row[8]; +ret->pcrLength = row[9]; +} + +struct vntr *vntrLoad(char **row) +/* Load a vntr from row fetched with select * from vntr + * from database. Dispose of this with vntrFree(). */ +{ +struct vntr *ret; + +AllocVar(ret); +ret->chrom = cloneString(row[0]); +ret->chromStart = sqlUnsigned(row[1]); +ret->chromEnd = sqlUnsigned(row[2]); +ret->name = cloneString(row[3]); +ret->repeatCount = atof(row[4]); +ret->distanceToLast = sqlSigned(row[5]); +ret->distanceToNext = sqlSigned(row[6]); +ret->forwardPrimer = cloneString(row[7]); +ret->reversePrimer = cloneString(row[8]); +ret->pcrLength = cloneString(row[9]); +return ret; +} + +struct vntr *vntrLoadAll(char *fileName) +/* Load all vntr from a whitespace-separated file. + * Dispose of this with vntrFreeList(). */ +{ +struct vntr *list = NULL, *el; +struct lineFile *lf = lineFileOpen(fileName, TRUE); +char *row[10]; + +while (lineFileRow(lf, row)) + { + el = vntrLoad(row); + slAddHead(&list, el); + } +lineFileClose(&lf); +slReverse(&list); +return list; +} + +struct vntr *vntrLoadAllByChar(char *fileName, char chopper) +/* Load all vntr from a chopper separated file. + * Dispose of this with vntrFreeList(). */ +{ +struct vntr *list = NULL, *el; +struct lineFile *lf = lineFileOpen(fileName, TRUE); +char *row[10]; + +while (lineFileNextCharRow(lf, chopper, row, ArraySize(row))) + { + el = vntrLoad(row); + slAddHead(&list, el); + } +lineFileClose(&lf); +slReverse(&list); +return list; +} + +struct vntr *vntrCommaIn(char **pS, struct vntr *ret) +/* Create a vntr out of a comma separated string. + * This will fill in ret if non-null, otherwise will + * return a new vntr */ +{ +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->repeatCount = sqlFloatComma(&s); +ret->distanceToLast = sqlSignedComma(&s); +ret->distanceToNext = sqlSignedComma(&s); +ret->forwardPrimer = sqlStringComma(&s); +ret->reversePrimer = sqlStringComma(&s); +ret->pcrLength = sqlStringComma(&s); +*pS = s; +return ret; +} + +void vntrFree(struct vntr **pEl) +/* Free a single dynamically allocated vntr such as created + * with vntrLoad(). */ +{ +struct vntr *el; + +if ((el = *pEl) == NULL) return; +freeMem(el->chrom); +freeMem(el->name); +freeMem(el->forwardPrimer); +freeMem(el->reversePrimer); +freeMem(el->pcrLength); +freez(pEl); +} + +void vntrFreeList(struct vntr **pList) +/* Free a list of dynamically allocated vntr's */ +{ +struct vntr *el, *next; + +for (el = *pList; el != NULL; el = next) + { + next = el->next; + vntrFree(&el); + } +*pList = NULL; +} + +void vntrOutput(struct vntr *el, FILE *f, char sep, char lastSep) +/* Print out vntr. 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, "%f", el->repeatCount); +fputc(sep,f); +fprintf(f, "%d", el->distanceToLast); +fputc(sep,f); +fprintf(f, "%d", el->distanceToNext); +fputc(sep,f); +if (sep == ',') fputc('"',f); +fprintf(f, "%s", el->forwardPrimer); +if (sep == ',') fputc('"',f); +fputc(sep,f); +if (sep == ',') fputc('"',f); +fprintf(f, "%s", el->reversePrimer); +if (sep == ',') fputc('"',f); +fputc(sep,f); +if (sep == ',') fputc('"',f); +fprintf(f, "%s", el->pcrLength); +if (sep == ',') fputc('"',f); +fputc(lastSep,f); +} + +/* -------------------------------- End autoSql Generated Code -------------------------------- */ +