Dear samtools users,
I am new to working with samtools and have encountered a problem after changing
the samtools version from 1.19 to 1.3
While the mpileup command worked fine in the old version, I get a constant
error message using different bam files when running mpileup in the 1.3 version.
After running samtools mpileup -uf .fasta -r .bam > output,
I get this output
[E..hts_open_format] fail to open file '.bam'
[mpileup] failed to open '.bam': Value too large for defined data type
The input BAM files worked fine using the old version and are only 8.2GB big.
I ran the command also without -u, but still the same error.
Does anyone know how to solve this? Maybe change some memory settings to the
samtools package? But I wouldnt know how to approach this...
thank you and looking forward to your advice
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