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/kgXref.c src/hg/lib/kgXref.c index a86ee35..ca6b389 100644 --- src/hg/lib/kgXref.c +++ src/hg/lib/kgXref.c @@ -1,187 +1,190 @@ /* kgXref.c was originally generated by the autoSql program, which also * generated kgXref.h and kgXref.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 "kgXref.h" void kgXrefStaticLoad(char **row, struct kgXref *ret) /* Load a row from kgXref table into ret. The contents of ret will * be replaced at the next call to this function. */ { ret->kgID = row[0]; ret->mRNA = row[1]; ret->spID = row[2]; ret->spDisplayID = row[3]; ret->geneSymbol = row[4]; ret->refseq = row[5]; ret->protAcc = row[6]; ret->description = row[7]; ret->rfamAcc = row[8]; ret->tRnaName = row[9]; } struct kgXref *kgXrefLoad(char **row) /* Load a kgXref from row fetched with select * from kgXref * from database. Dispose of this with kgXrefFree(). */ { struct kgXref *ret; AllocVar(ret); ret->kgID = cloneString(row[0]); ret->mRNA = cloneString(row[1]); ret->spID = cloneString(row[2]); ret->spDisplayID = cloneString(row[3]); ret->geneSymbol = cloneString(row[4]); ret->refseq = cloneString(row[5]); ret->protAcc = cloneString(row[6]); ret->description = cloneString(row[7]); ret->rfamAcc = cloneString(row[8]); ret->tRnaName = cloneString(row[9]); return ret; } struct kgXref *kgXrefLoadAll(char *fileName) /* Load all kgXref from a whitespace-separated file. * Dispose of this with kgXrefFreeList(). */ { struct kgXref *list = NULL, *el; struct lineFile *lf = lineFileOpen(fileName, TRUE); char *row[10]; while (lineFileRow(lf, row)) { el = kgXrefLoad(row); slAddHead(&list, el); } lineFileClose(&lf); slReverse(&list); return list; } struct kgXref *kgXrefLoadAllByChar(char *fileName, char chopper) /* Load all kgXref from a chopper separated file. * Dispose of this with kgXrefFreeList(). */ { struct kgXref *list = NULL, *el; struct lineFile *lf = lineFileOpen(fileName, TRUE); char *row[10]; while (lineFileNextCharRow(lf, chopper, row, ArraySize(row))) { el = kgXrefLoad(row); slAddHead(&list, el); } lineFileClose(&lf); slReverse(&list); return list; } struct kgXref *kgXrefCommaIn(char **pS, struct kgXref *ret) /* Create a kgXref out of a comma separated string. * This will fill in ret if non-null, otherwise will * return a new kgXref */ { char *s = *pS; if (ret == NULL) AllocVar(ret); ret->kgID = sqlStringComma(&s); ret->mRNA = sqlStringComma(&s); ret->spID = sqlStringComma(&s); ret->spDisplayID = sqlStringComma(&s); ret->geneSymbol = sqlStringComma(&s); ret->refseq = sqlStringComma(&s); ret->protAcc = sqlStringComma(&s); ret->description = sqlStringComma(&s); ret->rfamAcc = sqlStringComma(&s); ret->tRnaName = sqlStringComma(&s); *pS = s; return ret; } void kgXrefFree(struct kgXref **pEl) /* Free a single dynamically allocated kgXref such as created * with kgXrefLoad(). */ { struct kgXref *el; if ((el = *pEl) == NULL) return; freeMem(el->kgID); freeMem(el->mRNA); freeMem(el->spID); freeMem(el->spDisplayID); freeMem(el->geneSymbol); freeMem(el->refseq); freeMem(el->protAcc); freeMem(el->description); freeMem(el->rfamAcc); freeMem(el->tRnaName); freez(pEl); } void kgXrefFreeList(struct kgXref **pList) /* Free a list of dynamically allocated kgXref's */ { struct kgXref *el, *next; for (el = *pList; el != NULL; el = next) { next = el->next; kgXrefFree(&el); } *pList = NULL; } void kgXrefOutput(struct kgXref *el, FILE *f, char sep, char lastSep) /* Print out kgXref. Separate fields with sep. Follow last field with lastSep. */ { if (sep == ',') fputc('"',f); fprintf(f, "%s", el->kgID); if (sep == ',') fputc('"',f); fputc(sep,f); if (sep == ',') fputc('"',f); fprintf(f, "%s", el->mRNA); if (sep == ',') fputc('"',f); fputc(sep,f); if (sep == ',') fputc('"',f); fprintf(f, "%s", el->spID); if (sep == ',') fputc('"',f); fputc(sep,f); if (sep == ',') fputc('"',f); fprintf(f, "%s", el->spDisplayID); if (sep == ',') fputc('"',f); fputc(sep,f); if (sep == ',') fputc('"',f); fprintf(f, "%s", el->geneSymbol); if (sep == ',') fputc('"',f); fputc(sep,f); if (sep == ',') fputc('"',f); fprintf(f, "%s", el->refseq); if (sep == ',') fputc('"',f); fputc(sep,f); if (sep == ',') fputc('"',f); fprintf(f, "%s", el->protAcc); if (sep == ',') fputc('"',f); fputc(sep,f); if (sep == ',') fputc('"',f); fprintf(f, "%s", el->description); if (sep == ',') fputc('"',f); fputc(sep,f); if (sep == ',') fputc('"',f); fprintf(f, "%s", el->rfamAcc); if (sep == ',') fputc('"',f); fputc(sep,f); if (sep == ',') fputc('"',f); fprintf(f, "%s", el->tRnaName); if (sep == ',') fputc('"',f); fputc(lastSep,f); } /* -------------------------------- End autoSql Generated Code -------------------------------- */