[EMBOSS] specify primer3 directory?

[Scott Markel]

Paul,

You might want to have a look at section 5 of the primer3 documentation ("CHANGES FROM VERSION 2.2.3").  They changed the default for PRIMER_THERMODYNAMIC_ALIGNMENT from 0 to 1.  If this is left at 1, then you also need to supply a value for PRIMER_THERMODYNAMIC_PARAMETERS_PATH.

You can revert to the old defaults using this command-line argument.

	--default_version=1

Scott

Scott Markel, Ph.D.
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-----Original Message-----
From: emboss-bounces at lists.open-bio.org [mailto:emboss-bounces at lists.open-bio.org] On Behalf Of Paul Tanger
Sent: Thursday, 13 September 13 2012 1:25 PM
To: emboss at lists.open-bio.org
Subject: [EMBOSS] specify primer3 directory?

Hi,
I have a local install of emboss and I'm trying to get eprimer3 to
work, but I'm getting this error:

"Error: thermodynamic approach chosen, but path to thermodynamic
parameters not specified"

primer3 is installed, but not in the default location (which I think
is /opt/primer3_config ?) .
How do I specify where primer3 is installed?  Or is the cause of this
error something else?

googled for an answer for a while, but couldn't find one.

Thanks!
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