<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Hello Arnab,<div class=""><br class=""></div><div class="">Perhaps someone on the list will chime in with an answer for you, but you may also want to post to direct to BUSCO since your question is entirely related to BUSCO and you are more likely to get a quick response there.</div><div class=""><br class=""></div><div class="">—> <a href="https://gitlab.com/ezlab/busco/issues" class="">https://gitlab.com/ezlab/busco/issues</a></div><div class=""><br class=""></div><div class="">Thanks,</div><div class="">Carson</div><div class=""><br class=""></div><div class=""><br class=""></div><div class=""><br class=""></div><div class=""><br class=""><div><blockquote type="cite" class=""><div class="">On Jul 19, 2017, at 2:24 PM, Arnab Ghosh <<a href="mailto:leo1985.arnab@gmail.com" class="">leo1985.arnab@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class="">Hello,<div class=""><br class=""></div><div class="">I am trying to annotate genes in a non-model organism. I am using MAKER for this purpose and have trained SNAP and plan on Genemark and Augustus as well for the predictions.</div><div class=""><br class=""></div><div class="">After searching the google group on MAKER-devel I understand BUSCO is a good choice for training Augustus and decided to give it a shot. From one of the earlier posts on BUSCO, I read that it is supposed to generate a species name specific folder in the config directory of Augustus. However I did not get any. The BUSCO run finished fine with the run_species folder and all necessary table, hmm folder and other files etc. generated under the run_species folder. </div><div class=""><br class=""></div><div class="">Following was the command i used to run BUSCO:</div><div class=""><br class=""></div><div class="">python run_BUSCO.py --in mySpecies.fasta --out my_species --long --lineage_path /usr/home/aves_odb9 --mode genome<br class=""></div><div class=""><br class=""></div><div class="">So there was no "my_species" folder generated under the config directory of augustus.</div><div class=""><br class=""></div><div class="">Did I miss something ? My question is-- what should I pass to the "<b class="">augustus_species"</b> variable now in the maker control file for the next run of maker ?</div><div class=""><br class=""></div><div class="">Thanks so much for your time !!</div></div>
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