align.seqs Error

mothur bugs
1

Hi,

I’m running mothur on Ubuntu server and the batch file seems to run like a dream until it gets to align.seqs. Then happens this error:

mothur > align.seqs(fasta=mb.trim.contigs.good.unique.fasta, reference=silva.bacteria.pcr.fasta)\

Using 16 processors.

Reading in the silva.bacteria.pcr.fasta template sequences… DONE.
It took 13 to read 13683 sequences.
Aligning sequences from mb.trim.contigs.good.unique.fasta …
*** Error in mothur': double free or corruption (out): 0x0000000023e69e00 *** *** Error inmothur’: munmap_chunk(): invalid pointer: 0x0000000023e6ac90 ***
*** Error in mothur': free(): invalid size: 0x0000000023e6ac90 *** *** Error inmothur’: munmap_chunk(): invalid pointer: 0x0000000023e6ac90 ***
*** Error in mothur': munmap_chunk(): invalid pointer: 0x0000000023e6ac90 *** *** Error inmothur’: munmap_chunk(): invalid pointer: 0x0000000023e6ac90 ***
*** Error in mothur': free(): invalid size: 0x0000000023e6ac90 *** *** Error inmothur’: munmap_chunk(): invalid pointer: 0x0000000023e6ac90 ***
*** Error in mothur': double free or corruption (out): 0x0000000023e6ac90 *** *** Error inmothur’: free(): invalid size: 0x0000000023e6ac90 ***
*** Error in mothur': munmap_chunk(): invalid pointer: 0x0000000023e6ac90 *** *** Error inmothur’: munmap_chunk(): invalid pointer: 0x0000000023e6ac90 ***
*** Error in mothur': munmap_chunk(): invalid pointer: 0x0000000023e6ac90 *** *** Error inmothur’: munmap_chunk(): invalid pointer: 0x0000000023e69c60 ***
*** Error in `mothur’: munmap_chunk(): invalid pointer: 0x0000000023e6ac90 ***
Aborted (core dumped)

Any idea what causes this / how this can be prevented?

2

…and I resolved the problem by just redoing the reference file. The alignment works nicely with new reference file (though it should contain the same sequences).