error libopen-rte.so.7

[Manoharan Kumar]

Dear All,

I am getting the below error while executing "./abyss-1.3.6/bin/abyss-pe np=8 k=64 name=ecoli in='reads1.fq reads2.fq'" in ubuntu 12.04.

Error:

"/usr/local/bin/mpirun -np 8 ABYSS-P -k64 -q3 --coverage-hist=coverage.hist -s ecoli-bubbles.fa  -o ecoli-1.fa reads1.fq reads2.fq
/usr/local/bin/mpirun: error while loading shared libraries: libopen-rte.so.7: cannot open shared object file: No such file or directory
make: *** [ecoli-1.fa] Error 127"

I also tried abyss-1.5.2 version but still it output the same error.

Looking forward for your reply,

Thanks,
Manoharan

[Anthony Raymond]

Hi Manoharan,

This is an error originating from mpirun. Try this:

ldd /usr/local/bin/mpirun

You will likely see "libopen-rte.so.7 => not found". Did you install the MPI library yourself? You may need to add a folder to your LD_LIBRARY_PATH variable. The folder you need to add depends on where you installed MPI.

Note that if you are running ABySS on a single machine you don't need to run with multiple processors (don't use np=8 here). You won't get this error if you thread the remaining programs instead by using the j=8 parameter.

Tony

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