static int convert(char *in, mFILE *ofp, char *out, int format, int prec, int comp, int normalise) { Read *r; if (NULL == (r = read_reading(in, format))) { fprintf(stderr, "%s: failed to read\n", in); return 1; } if (normalise) { subtract_background(r); reset_max_called_height(r); rescale_heights(r); } add_comments(r, in, format); if (prec == 1) scale_trace8(r); if (comp != -1) set_compression_method(comp); if (0 != (mfwrite_reading(ofp, r, TT_SCF))) { fprintf(stderr, "%s: failed to write\n", out); read_deallocate(r); return 1; } read_deallocate(r); return 0; }
int convert(FILE *infp, FILE *outfp, char *infname, char *outfname, struct opts *opts) { Read *r; if (NULL == (r = fread_reading(infp, infname, opts->in_format))) { fprintf(stderr, "failed to read file %s\n", infname); return 1; } if (opts->sub_background) { /* trace_freq(r->traceA, r->NPoints); trace_freq(r->traceC, r->NPoints); trace_freq(r->traceG, r->NPoints); trace_freq(r->traceT, r->NPoints); */ subtract_background(r); /* separate_dyes(r, matrix); trace_freq(r->traceA, r->NPoints); trace_freq(r->traceC, r->NPoints); trace_freq(r->traceG, r->NPoints); trace_freq(r->traceT, r->NPoints); */ reset_max_called_height(r); } if (opts->normalise) { rescale_heights(r); } if (opts->scale) { rescale_trace(r, opts->scale); } if (opts->name) r->ident = strdup(opts->name); else if (0 == strcmp(outfname, "(stdout)")) r->ident = strdup(infname); else r->ident = strdup(outfname); if (opts->compress_mode != -1) set_compression_method(opts->compress_mode); if (0 != (fwrite_reading(outfp, r, opts->out_format))) { fprintf(stderr, "failed to write file %s\n", outfname); read_deallocate(r); return 1; } read_deallocate(r); return 0; }