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Continuation after error "paired reads have different names" #425
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@scg40 are u using the same version of bwa?
I use an example, if my first read in I would recommend ordering the reads according the names and correct inconsistent situations. |
I am using bwa-mem both on the server cluster of my university and on the galaxy platform.
When processing a sample with paired end data with mismatched reads, the program terminates on Galaxy but not on the server cluster.
How is it decided wether the program terminates after
if (strcmp(p[0]->name, p[1]->name) != 0)
err_fatal(func, "paired reads have different names: "%s", "%s"\n", p[0]->name, p[1]->name);
or just prints the message to the error output but continues?
I would really appreciate an explanation because I try to understand what causes the termination on Galaxy.
Thank you very much
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