bgzf_read_block] EOF marker is absent reformat.sh

BBMap/BBTools reformat.sh : real error or spurious message? [W::bgzf_read_block] EOF marker is absent reformat.sh

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When subsampling paired-end .fastq.gz files using reformat.sh from BBMap/BBTools, I get this error message:

[W::bgzf_read_block] EOF marker is absent reformat.sh

I’ve checked the input files with gunzip -t, no error. The input files are a concatenation of bcl2fastq outputs from two lanes. reformat.sh seems to complete with no error code, but is this error message safe to ignore? Similar report in another post.

Thanks for help!


BBTools


BBMap

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