[vinodhsri]

[bcf_sync] incorrect number of fields Error:

Has anyone encountered this error ('[bcf_sync] incorrect number of fields (0 != 5)') and found a solution already:


vcfutils.pl splitchr -l 50000000 ucsc.hg19.fasta.fai | xargs -i echo samtools mpileup -I -C50 -m3 -F0.0002 -DSuf ucsc.hg19.fasta -r {} -b bam.list | bcftools view -bcvg - /> part-{}.bcf

[bcf_sync] incorrect number of fields (0 != 5) at 0:0
[afs] 0:0.000
xargs: echo: terminated by signal 13

Appreciate your advice.

vsri

[rubi]

Hi vinodhsri,

Did you manage to solve the [bcf_sync] incorrect number of fields (0 != 5) problem?

I'm facing the same problem myself.

Thanks,
rubi

[tahamasoodi]

Hi,

I'm getting the same error message. How it can be sorted out?

samtools: bam_plcmd.c:612: group_smpl: Assertion `id >= 0 && id < m->n' failed