<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="">Hi Chao Chao,<div class=""><br class=""></div><div class="">I’ve not run into this before. Could you post the RepeatModeler command you used?</div><div class=""><br class=""></div><div class="">Thanks,</div><div class="">Mike<br class=""><div><blockquote type="cite" class=""><div class="">On Mar 5, 2017, at 6:26 AM, <a href="mailto:dcg@cau.edu.cn" class="">dcg@cau.edu.cn</a> wrote:</div><br class="Apple-interchange-newline"><div class=""><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span class=""></span>Dear sir:</div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""> Before the maker opeations, I do repeat masking first on my contigs. </div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""> However , when I followed " <span style="font-family: sans-serif; line-height: 1.2em; orphans: 2; widows: 2; background-color: window;" class=""><b class="">Repeat Library Construction-Advanced ", no results generated after I running LTRharvest. So I couldn't do any further.</b></span></div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span style="font-family: sans-serif; line-height: 1.2em; orphans: 2; widows: 2; background-color: window;" class=""><b class=""> </b></span></div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span style="font-family: sans-serif; line-height: 1.2em; orphans: 2; widows: 2; background-color: window;" class=""><b class=""> </b>When I attempted to follow</span><span style="font-size: 10.5pt; line-height: 1.5; background-color: window;" class="">" </span><span style="font-size: 10.5pt; font-family: sans-serif; line-height: 1.2em; orphans: 2; widows: 2; background-color: window;" class="">Repeat Library Construction-Basic " to run RepeatModeler, a note caused my attention even though RECON can return some results :</span></div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""> <span style="font-family: ''; font-size: 10.5pt; line-height: 1.5; background-color: window;" class=""><b class="">NOTE: RepeatScout did not return any models.</b></span></div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span style="font-family: ''; font-size: 10.5pt; line-height: 1.5; background-color: window;" class=""><b class=""><br class=""></b></span></div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span style="font-family: ''; font-size: 10.5pt; line-height: 1.5; background-color: window;" class=""><b class=""> Is the situation above normal in masking progress? How can I deal with the problems to make a high-quality repeat library for my assemblied contigs?</b></span></div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span style="font-family: ''; font-size: 10.5pt; line-height: 1.5; background-color: window;" class=""><b class=""><br class=""></b></span></div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span style="font-family: ''; font-size: 10.5pt; line-height: 1.5; background-color: window;" class=""> Hope to hear from you.</span></div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span style="font-family: ''; font-size: 10.5pt; line-height: 1.5; background-color: window;" class=""> Best wishes!</span></div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span style="font-family: sans-serif; font-size: 1.6em; line-height: 1.2em; orphans: 2; widows: 2; background-color: window;" class=""><br class=""></span></div><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class="">Chao Chao</div><hr size="1" align="left" style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; width: 210px; height: 1px;" class=""><div style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span class=""><div style="margin: 10px; font-family: verdana; font-size: 10pt;" class=""><div class="">2017.03.05</div></div></span></div><span style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; float: none; display: inline !important;" class="">_______________________________________________</span><br style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><span style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; float: none; display: inline !important;" class="">maker-devel mailing list</span><br style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><a href="mailto:maker-devel@box290.bluehost.com" style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class="">maker-devel@box290.bluehost.com</a><br style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><a href="http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org" style="font-family: 'Microsoft YaHei UI'; font-size: 14px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 21px; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class="">http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org</a></div></blockquote></div><br class=""></div></body></html>