Samtools view error: header include @SQ line missing LN tag.

After running minimap2 aligning .fastq to index .mmi creating .bam and pipeing the result into samtools view the above error ensues. What can I do abou it?

minimap2

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updated 3.5 years ago by Ram 4.5K • | written 5.5 years ago by Digimon 0

What is the exact command you used?

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written 5.5 years ago by GenoMax 16K

minimap2 -t 40 -ax splice -k14 -u f --secondary=no input.mmi othr_input.fastq.gz | samtools view -Sb > othr_input.bam

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written 5.5 years ago by Digimon 0

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