4C-seq analysis using w4Cseq ERROR: Requested column 1, but database file all_reads.bed only has fields 1 - 0.

Question

[ste.lu]

Dear,

I am trying to analyze some data with the w4Cseq pipeline (https://github.com/WGLab/w4CSeq).

For only some of my sequences I got this error message: ERROR: Requested column 1, but database file all_reads.bed only has fields 1 - 0.

Basically the pipeline was not able to produce the .bed from my reads

I am using: bwa 0.7.9 samtools 1.6 bedtools 2.26.0 hg19 as reference CATG as cutter and the cutter is in my primer.

Do you have any idea what can be wrong?

Thanks