Error in running blast?

Question

[majeedaasim]

I ran blastall through proteinortho but it gives me the following error:

**Step 2**
Running blast analysis: 0% (0/10)*** Error in `blastall': double free or corruption (fasttop): 0x00007fa53c020160 ***
======= Backtrace: =========
/lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7fa5556407e5]
/lib/x86_64-linux-gnu/libc.so.6(+0x8037a)[0x7fa55564937a]
/lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7fa55564d53c]
/usr/lib/x86_64-linux-gnu/libncbi.so.6(Nlm_ReleaseAppContext+0x87)[0x7fa555bceb17]
blastall(NlmThreadExit+0x73)[0x55bbece786c3]
blastall(+0xa787)[0x55bbece78787]
/lib/x86_64-linux-gnu/libpthread.so.0(+0x76ba)[0x7fa55599a6ba]
/lib/x86_64-linux-gnu/libc.so.6(clone+0x6d)[0x7fa5556d041

Aborted (core dumped)
Segmentation fault (core dumped)
*** Error in `blastall': corrupted size vs. prev_size: 0x000055c1b6b99440 ***
======= Backtrace: =========

[lieven.sterck]

any particular reason you're still using blastall in stead of blast+ implementation? what is the exact command you're trying to run? Looks like you might have issues running it on multiple cores

[majeedaasim]

Yes actually there appears segmentation error. I am using proteinortho version 5 to find gene orthology. THe programme uses reciprocal blastall.

[Jean-Karim Heriche]

This looks like a bug. This type of error usually happens when the program tries to use memory that it wasn't allocated. This should be reported to the software authors. However, since blastall is deprecated, you should probably notify the authors of proteinortho.

[Santosh Anand]

Seems like a bug in the program. The error means that the program is trying to double free the memory, which was already free in the first place (or probably it corrupted the data-structure to which it was writing).

what was your actual command line?

[majeedaasim]

The command I used is

proteinortho5.pl fasta1 fasta 2 fasta3 fasta4 fasta5 fasta 6 -p=blastn -clean