[maker-devel] GeneMarkES Installation

[Daniel Standage]

Carson,

I unpacked the tarball and confirmed that the original files were replaced.
However, I am still getting the same problem.

Daniel


On Mon, Nov 16, 2009 at 11:17 AM, Carson Holt <carson.holt at genetics.utah.edu
> wrote:

>  This is caused by a bug in GeneMark.  I submitted the same bug and a
> proposed fix to the GeneMark group some time ago, but it looks like they
> haven’t updated the downloadable version yet.  I’ve attached my “fixed”
> version of two files that need to be replaced.  You should also submit a bug
> report to the GeneMark group as well, see their website on who to contact.
>  Seeing error reports from more people will help them with  their debugging.
>
> Put the attached file in the same directory you downloaded the original
> GeneMark tar ball to.  Then extract the contents “tar -zxvf
> gm_es_bp_linux64_v2.3a_fix.tar.gz”.  This should reach inside the directory
> created by GeneMark (gm_es_bp_linux64_v2.3a/) and replace the files
> get_bp_path_Pij.pl and get_single_multiple.pl.
>
> You can then run gm_es.pl again.
>
> Thanks,
> Carson
>
>
> On 11/16/09 7:34 AM, "Daniel Standage" <byuhobbes at gmail.com> wrote:
>
> I'm trying to install GeneMarkES for use with Maker and I'm having trouble
> finding good documentation. I downloaded and unpacked
> gm_es_bp_linux64_v2.3a.tar.gz and genemark_hmm_euk.linux.tar.gz and followed
> the README instructions in each. When I run gm_es.pl <http://gm_es.pl>  in
> a test directory, I get the following error message.
>
>
> cat: dna.fa_*: No such file or directory
> Error on system: combine all training data
>
> Any ideas where I could get more information about this message?
>
> Thanks.
>
> Daniel Standage
> Plant Genetics Lab
> Brigham Young University
>
>
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