[Biopython] Primer3Commandline rookie question

[Peter]

On Wed, Nov 3, 2010 at 8:30 PM, Jukka-Pekka Verta <jp.verta at gmail.com> wrote:
>
>
> Thanks Brad,
> calling
> test()
> results in error
>
> Traceback (most recent call last):
> ...
> RuntimeError: Command eprimer3 -auto -outfile=output.pr3 -sequence=sequence
> -hybridprobe=True -psizeopt=200 -oligosize=20 -explainflag=True returned
> non-zero exit status 127

On Linux error 127 means the command was not found.

> as does calling
> import subprocess
> subprocess.check_call(str(test))
>
> Traceback (most recent call last):
> ...
> OSError: [Errno 2] No such file or directory
> Ummm.... ?
> JP

Have you installed the EMBOSS command line tools? Are they on
the system path? What happens at the command line if you type
eprimer3 (or the longer version Biopython is trying to use)?

Peter