jhcaddisfly

I send the extended log file to you via email. Thanks, j.

Hi, thank you very much for your reply. I would have some further questions. 1. --> you have a long repetitive region, both sides end up in that region: How...

Thanks a lot!

Thanks for your answer! How can I send it? I can't attach .sam here.

How can I extract just the header and the read?

Thanks for your answers. Please find attached the text file with the read and sam header. [my.txt](https://github.com/Cibiv/NextGenMap/files/3707873/my.txt) I also tried to run the commands seperately, but got the same error...