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  • #16
    [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

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    • #17
      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

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      • #18
        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
        Thanks,

        Comment

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