Carson,<br><br>I unpacked the tarball and confirmed that the original files were replaced. However, I am still getting the same problem.<br><br>Daniel<br><br><br><div class="gmail_quote">On Mon, Nov 16, 2009 at 11:17 AM, Carson Holt <span dir="ltr"><<a href="mailto:carson.holt@genetics.utah.edu">carson.holt@genetics.utah.edu</a>></span> wrote:<br>
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<font face="Calibri, Verdana, Helvetica, Arial"><span style="font-size: 11pt;">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.<br>
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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 <a href="http://get_single_multiple.pl" target="_blank">get_single_multiple.pl</a>.<br>
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You can then run <a href="http://gm_es.pl" target="_blank">gm_es.pl</a> again.<br>
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Thanks,<br>
Carson<br>
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On 11/16/09 7:34 AM, "Daniel Standage" <<a href="http://byuhobbes@gmail.com" target="_blank">byuhobbes@gmail.com</a>> wrote:<br>
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</span></font><blockquote><font face="Calibri, Verdana, Helvetica, Arial"><span style="font-size: 11pt;">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 <a href="http://gm_es.pl" target="_blank">gm_es.pl</a> <<a href="http://gm_es.pl" target="_blank">http://gm_es.pl</a>> in a test directory, I get the following error message.<div class="im">
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cat: dna.fa_*: No such file or directory<br>
Error on system: combine all training data<br>
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Any ideas where I could get more information about this message?<br>
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Thanks.<br>
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Daniel Standage<br>
Plant Genetics Lab<br>
Brigham Young University<br>
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