Hello,
I am trying to calculate the mapping statistics of a BAM file. I am using
SAMtools 1.3.1 and am able to get statistics on the BAM file using samtools
flagstat. However, when I try samtools stats, which I would like to use, I
get the following error:
[W::bam_hdr_read] EOF marker is absent. The input is probably truncated.
[E::inflate_block] inflate failed: progress temporarily not possible, or
in() / out() returned an error
[E::bgzf_read_block] inflate_block error -1
[E::bgzf_read] bgzf_read_block error -1 after 0 of 4 bytes
Failure while decoding file
Does anyone have any suggestions what could cause this and how I could fix
it?
Thank you,
Maddy MacDonald
--
Madolyn Stinner (formerly Madolyn MacDonald)
UDel Bioinformatics and Systems Biology, PhD student
Graduate Research Assistant in Kelvin Lee Lab, DBI Room 270
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