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/tRNAs.c src/hg/cgilib/tRNAs.c new file mode 100644 index 0000000..c3b0997 --- /dev/null +++ src/hg/cgilib/tRNAs.c @@ -0,0 +1,193 @@ +/* tRNAs.c was originally generated by the autoSql program, which also + * generated tRNAs.h and tRNAs.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 "tRNAs.h" + + +void tRNAsStaticLoad(char **row, struct tRNAs *ret) +/* Load a row from tRNAs 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]); +safecpy(ret->strand, sizeof(ret->strand), row[5]); +ret->aa = row[6]; +ret->ac = row[7]; +ret->intron = row[8]; +ret->trnaScore = sqlFloat(row[9]); +ret->genomeUrl = row[10]; +ret->trnaUrl = row[11]; +} + +struct tRNAs *tRNAsLoad(char **row) +/* Load a tRNAs from row fetched with select * from tRNAs + * from database. Dispose of this with tRNAsFree(). */ +{ +struct tRNAs *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]); +safecpy(ret->strand, sizeof(ret->strand), row[5]); +ret->aa = cloneString(row[6]); +ret->ac = cloneString(row[7]); +ret->intron = cloneString(row[8]); +ret->trnaScore = sqlFloat(row[9]); +ret->genomeUrl = cloneString(row[10]); +ret->trnaUrl = cloneString(row[11]); +return ret; +} + +struct tRNAs *tRNAsLoadAll(char *fileName) +/* Load all tRNAs from a whitespace-separated file. + * Dispose of this with tRNAsFreeList(). */ +{ +struct tRNAs *list = NULL, *el; +struct lineFile *lf = lineFileOpen(fileName, TRUE); +char *row[12]; + +while (lineFileRow(lf, row)) + { + el = tRNAsLoad(row); + slAddHead(&list, el); + } +lineFileClose(&lf); +slReverse(&list); +return list; +} + +struct tRNAs *tRNAsLoadAllByChar(char *fileName, char chopper) +/* Load all tRNAs from a chopper separated file. + * Dispose of this with tRNAsFreeList(). */ +{ +struct tRNAs *list = NULL, *el; +struct lineFile *lf = lineFileOpen(fileName, TRUE); +char *row[12]; + +while (lineFileNextCharRow(lf, chopper, row, ArraySize(row))) + { + el = tRNAsLoad(row); + slAddHead(&list, el); + } +lineFileClose(&lf); +slReverse(&list); +return list; +} + +struct tRNAs *tRNAsCommaIn(char **pS, struct tRNAs *ret) +/* Create a tRNAs out of a comma separated string. + * This will fill in ret if non-null, otherwise will + * return a new tRNAs */ +{ +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->aa = sqlStringComma(&s); +ret->ac = sqlStringComma(&s); +ret->intron = sqlStringComma(&s); +ret->trnaScore = sqlFloatComma(&s); +ret->genomeUrl = sqlStringComma(&s); +ret->trnaUrl = sqlStringComma(&s); +*pS = s; +return ret; +} + +void tRNAsFree(struct tRNAs **pEl) +/* Free a single dynamically allocated tRNAs such as created + * with tRNAsLoad(). */ +{ +struct tRNAs *el; + +if ((el = *pEl) == NULL) return; +freeMem(el->chrom); +freeMem(el->name); +freeMem(el->aa); +freeMem(el->ac); +freeMem(el->intron); +freeMem(el->genomeUrl); +freeMem(el->trnaUrl); +freez(pEl); +} + +void tRNAsFreeList(struct tRNAs **pList) +/* Free a list of dynamically allocated tRNAs's */ +{ +struct tRNAs *el, *next; + +for (el = *pList; el != NULL; el = next) + { + next = el->next; + tRNAsFree(&el); + } +*pList = NULL; +} + +void tRNAsOutput(struct tRNAs *el, FILE *f, char sep, char lastSep) +/* Print out tRNAs. 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->aa); +if (sep == ',') fputc('"',f); +fputc(sep,f); +if (sep == ',') fputc('"',f); +fprintf(f, "%s", el->ac); +if (sep == ',') fputc('"',f); +fputc(sep,f); +if (sep == ',') fputc('"',f); +fprintf(f, "%s", el->intron); +if (sep == ',') fputc('"',f); +fputc(sep,f); +fprintf(f, "%g", el->trnaScore); +fputc(sep,f); +if (sep == ',') fputc('"',f); +fprintf(f, "%s", el->genomeUrl); +if (sep == ',') fputc('"',f); +fputc(sep,f); +if (sep == ',') fputc('"',f); +fprintf(f, "%s", el->trnaUrl); +if (sep == ',') fputc('"',f); +fputc(lastSep,f); +} + +/* -------------------------------- End autoSql Generated Code -------------------------------- */ +