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MikkelSchubert avatar MikkelSchubert commented on July 29, 2024

Hi Nadine,

The problem you are experiencing is caused by a change that was introduced into mapDamage 2.2.0, causing it to abort if a BAM file contained paired-end reads, since such reads are not perfectly supported by mapDamage.

I'm currently working on improving support for PE reads in mapDamage, and in the mean time I've published a small update to mapDamage that reverts this change (mapDamage v2.2.1). If you install that version of mapDamage, then you should be able to run the examples.

Best regards,
Mikkel

from paleomix.

Rhinogradentia avatar Rhinogradentia commented on July 29, 2024

Hi Mikkel,

thanks a lot!

Best,
Nadine

from paleomix.

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