Help with error: [E::inflate_block] inflate failed: invalid distance too far back

[Israel Aguilar]

Hi Tobias and anyone reading,

We are running delly2 multi-thread in 4 sample batches to detect Deletions. During the first calling, using a command similar to:

delly call -t DEL -g hg19.fa -o s1.bcf sample1.bam sample2.bam [...]

We keep getting the following error:

[2017-Jan-12 18:42:42] Paired-end clustering

0%   10   20   30   40   50   60   70   80   90   100%
|----|----|----|----|----|----|----|----|----|----|
**********************[E::inflate_block] inflate failed: invalid distance too far back
[E::bgzf_read_block] inflate_block error -1
[E::bgzf_read] bgzf_read_block error -1 after 276 of 347 bytes
*****************************

¿Do you know what could be the cause?

Thanks for your time.

Regards,

Isra.

[Israel Aguilar]

Almost forgot. We are using the latest version from git.

[Tobias Rausch]

Looks like a corrupted BAM file. Are you maybe missing the end of file (EOF) marker. Can you try running samtools stats on your BAM files or did you notice any error when you used samtools index sample1.bam?

samtools stats sample1.bam

samtools stats sample2.bam

Thanks, Tobias

On Wed, Jan 18, 2017 at 12:19 AM, Israel Aguilar <iagui...@gmail.com> wrote:

Almost forgot. We are using the latest version from git.

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