[maker-devel] change the PATH to gmhmm_wrap

[Carson Holt]

Your cluster is apparently using the CPAN module local::lib to define
where perl libraries and executables get installed, this is overriding
MAKER's own installation parameters, thus putting things in the wrong
place.  This only happens in 2.10, the 2.25 version of MAKER knows how to
keep local::lib from messing with it's relative installation paths.  So
install 2.25 and make sure to remove the mis-located MAKER executables in
/xanadu/site/common/VERSIONS/perl-1.7/bin/ before trying to run again.

Thanks,
Carson



On 12-07-05 11:06 AM, "Christoph Hahn" <chrisi.hahni at gmail.com> wrote:

>Dear MAKER developers and users,
>
>I am new to MAKER and during my first attempts I unfortunately
>encountert some problems. It would be great if anyone could help me out!
>Here's my problem:
>I have used gm_es.pl from Genemark to create es.mod for my assembly. I
>would like to give this model to MAKER, so I add the path to es.mod in
>the maker_opts.ctl file at gmhmm. So far so good. Unfortunately, when I
>am running maker it cannot find the gmhmm_wrap script. Here s what it
>says:
>
>#-------------------------------#
>Can't open perl script
>"/xanadu/site/common/VERSIONS/perl-1.7/bin/../lib/Widget/genemark/gmhmm_wr
>ap": 
>No such file or directory
>ERROR: Genemark failed
>
>Apparently it is looking for the script in the wrong place. I have found
>it in:
>/site/VERSIONS/perl-1.7/perl/lib/MAKER/Widget/genemark/gmhmm_wrap
>The other paths are correct.
>
>Is there a way to manually tell Maker where to look for this script? I
>should mention also that I have maker (2.10) running on a cluster.
>
>Any help is highly appreciated! Thanks in advance!!
>
>much obliged,
>Christoph
>
>University of Oslo
>
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