Force standard 28 bytes empty BGZF GZIP block for no compression BAM

[peterjc]

This avoids the following warning from uncompressed BAM files which don't end with the expected 28 byte empty BGZF block as an EOF marker:

[bam_header_read] EOF marker is absent. The input is probably truncated.

See mailing list discussion.

Thanks,

Peter

[peterjc]

Link to mailing list discussion:
http://sourceforge.net/mailarchive/message.php?msg_id=28413844

[tamaram444]

Hi Peter,

Thanks for posting the patch. Unfortunately the link to the patch you posted in the mailing list discussion does not lead to the patch and gives an error when I try to open it. I really need this patch to get Samtools to work correctly. Can you possibly post it again or tell me the correct location of where to find it?

Best wishes,

Tamara Miller