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<p class="MsoNormal">It’s been a few years but I have seen this when one of the MAKER job chunks fails, the chance increases with genome and input data size. I recall it being worse when using a network file system at that time.<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">chris<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"><b><span style="font-size:12.0pt;color:black">From: </span></b><span style="font-size:12.0pt;color:black">maker-devel <maker-devel-bounces@yandell-lab.org> on behalf of "Boyher, Adam" <ABoyher@danforthcenter.org><br>
<b>Date: </b>Wednesday, January 15, 2020 at 7:57 PM<br>
<b>To: </b>"maker-devel@yandell-lab.org" <maker-devel@yandell-lab.org><br>
<b>Subject: </b>[maker-devel] Maker failing<o:p></o:p></span></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Hi<o:p></o:p></p>
<p class="MsoNormal">I’ve been having this issue for a few weeks with Maker. I thought it was just a memory issue, I’ve recently started annotating a larger genome with more evidence. But I’m not sure that’s the issue anymore. The most recent run yielded this
error:<o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
<p class="MsoNormal">ERROR: The file /scratch/dir_60712/maker_h8TIEf/12/Chromosome10_0.7125796-7129044.RNAseqTISSUE_Chromosome06_0%3A14710146-14710774.e.exonerate appears to be incomplete<o:p></o:p></p>
<p class="MsoNormal">MAKER will need to delete the file, before trying again<o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
<p class="MsoNormal">--> rank=12, hostname=pacifica.datasci.danforthcenter.org<o:p></o:p></p>
<p class="MsoNormal">ERROR: Failed while polishig ESTs<o:p></o:p></p>
<p class="MsoNormal">ERROR: Chunk failed at level:2, tier_type:3<o:p></o:p></p>
<p class="MsoNormal">FAILED CONTIG:Chromosome10_0<o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
<p class="MsoNormal">Any idea what could cause that?<o:p></o:p></p>
<p class="MsoNormal"><br>
Adam<o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
<p class="MsoNormal">Sent from <a href="https://go.microsoft.com/fwlink/?LinkId=550986">
Mail</a> for Windows 10<o:p></o:p></p>
<p class="MsoNormal"> <o:p></o:p></p>
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