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| bl_fastq_name_cmp(3) | FreeBSD Library Functions Manual | bl_fastq_name_cmp(3) |
LIBRARY
#include <biolibc/fastq.h> -lbiolibc -lxtend
SYNOPSIS
size_t bl_fastq_name_cmp(bl_fastq_t *read1, bl_fastq_t *read2)ARGUMENTS
read1, read2 FASTQ reads to compare
DESCRIPTION
Compare the read names of two FASTQ reads. This is useful when processing paired-end data, which must be kept in-sync. I.e. if a sequence if removed from a 5' file, the same sequence should be removed from the 3' file whether or not it meets quality minimums.RETURN VALUES
0 if read1 and read2 have the same name < 0 if read1 name is lexically less than read2 name > 0 if read1 name is lexically greater than read2 nameEXAMPLES
s1 = bl_fastq_read(&fastq_rec[0], tp->instream1);
s2 = bl_fastq_read(&fastq_rec[1], tp->instream2);
if ( (s1 == BL_READ_OK) && (s2 == BL_READ_OK) )
{
if ( bl_fastq_name_cmp(&fastq_rec[0], &fastq_rec[1]) != 0 )
{
fprintf(stderr, "fastq-trim: Paired files out of sync.n");
trim_close_files(tp);
exit(EX_DATAERR);
}
...
}
SEE ALSO
bl_fastq_read(3)
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