<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; color: rgb(0, 0, 0); font-size: 14px; font-family: Calibri, sans-serif; "><div>Sometime the master_datastore_index.log gets munged by MPI (processes print at the same time). You can rebuild it by running a single instance of maker whith the -dsindex flag. It only takes about 60 seconds to rebuild.</div><div><br></div><div>Example:</div><div>cd <directory where you run maker></div><div>maker -dsindex</div><div><br></div><div>--Carson</div><div><br></div><div><br></div><span id="OLK_SRC_BODY_SECTION"><div style="font-family:Calibri; font-size:11pt; text-align:left; color:black; BORDER-BOTTOM: medium none; BORDER-LEFT: medium none; PADDING-BOTTOM: 0in; PADDING-LEFT: 0in; PADDING-RIGHT: 0in; BORDER-TOP: #b5c4df 1pt solid; BORDER-RIGHT: medium none; PADDING-TOP: 3pt"><span style="font-weight:bold">From: </span> Yunfei Guo <<a href="mailto:guoyunfei1989@gmail.com">guoyunfei1989@gmail.com</a>><br><span style="font-weight:bold">Date: </span> Friday, 24 May, 2013 12:15 PM<br><span style="font-weight:bold">To: </span> <<a href="mailto:maker-devel@yandell-lab.org">maker-devel@yandell-lab.org</a>><br><span style="font-weight:bold">Subject: </span> [maker-devel] ./FINISHED/FINISHED.gff<br></div><div><br></div><div dir="ltr">Hi Carson,<div><br></div><div style="">When I tried to merge all gff files, I got this error:</div><div style=""><br></div><div style="">ERROR: The file './FINISHED/FINISHED.gff' does not exist</div><div style=""><br></div><div style="">and I found something like below in master_datastore_index.log. Is this caused by the duplicate scaffold?</div><div style=""><div><br></div><div><div>C12919781 GapCloser-Nigro-Min1k_datastore/28/79/C12919781/ FINISHED</div><div> FINISHED</div><div>scaffold138015 GapCloser-Nigro-Min1k_datastore/F7/0C/scaffold138015/ FINISHED</div></div><div><br></div><div><br></div><div style="">FASTA lines for C12919781 and scaffold138015</div><div style=""><br></div><div style=""><div>>C12919781 36.0</div><div>>C12919781 36.0</div><div>CGTAAATGCATCCGCGTATAAATGCGACAGTAAGAGTTAATGATGCAGTATAAAAAGCAAGAAAAAGCGTTTATGGTGGGAGGCGGAGGCATCCAACTAACACCAGACTGTTAACCCGGAGACCAGTGGTCGACACCGTCG(skip...)</div><div>>scaffold138015 35.1</div><div>ATATGCATATGCATATGCATATGCATATGCATATGCATATATAGACATGTAGATATAGACATCAATCATACACGTAACCCATCATTCGTATTATTAAATCACATTTTGTGACTTTGCCCATCTGTCTTTAAAGGGACAATGTGTATG(skip...)</div><div><br></div></div><div style="">maker 2.27</div><div style=""><br></div><div style="">Thanks,</div><div style="">Yunfei</div></div></div>
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