<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">You will need to downgrade. I know 1.3.1 works. I will have to update MAKER for the new tRNAscan.<div class=""><br class=""></div><div class="">—Carson<br class=""><div><br class=""><blockquote type="cite" class=""><div class="">On Jan 16, 2019, at 9:43 AM, Seth Munholland <<a href="mailto:munholl@uwindsor.ca" class="">munholl@uwindsor.ca</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class=""><div dir="ltr" class=""><div class="">Hi Everyone,</div><div class=""><br class=""></div><div class="">Just getting my latest Maker install running and I'm running into the following issue when it gets to tRNAscan-SE:<br class=""><br class="">running trnascan.<br class="">#--------- command -------------#<br class="">Widget::trnascan:<br class="">/usr/local/bin/tRNAscan-SE -b -q /tmp/maker_5C2HGK/Chr01_94779-3233013.abinit_no<br class="">mask.0 > /tmp/maker_5C2HGK/Chr01_94779-3233013.abinit_nomask.0.eukaryotic.trnasc<br class="">an<br class="">#-------------------------------#<br class=""><br class="">WARNING: -q exists already.<br class=""><br class=""> (O)verwrite file, (A)ppend to file, or (Q)uit program?<br class=""><br class=""></div><div class="">I have tRNAscan-SE-2.0 installed, which has a -b option for a bed output but needs a file to be specified. Do I need to roll back to a specific version or would it be easier to skip it and run tRNAscan-SE separately? Do the outputs get integrated later to adjsut Maker calls or are they stand alone?<br class=""></div><div class=""><br class=""></div><div class=""><div class=""><div dir="ltr" class="gmail_signature"><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class=""><div dir="ltr" class=""><div class="">Seth Munholland, Ph.D. Candidate</div><div class="">Intern, International Society for Computational Biology</div><div class="">VP, Finance & Extracurricular Affairs, DBGSA</div><div class="">Department of Biological Sciences</div><div class="">Rm. 306 Biology Building</div><div class="">University of Windsor</div><div class="">401 Sunset Ave. N9B 3P4</div><div class="">T: <a value="+15192533000" class="">(519) 253-3000 Ext: 4755</a></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div>
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