<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="">The issue is your input GFF3 file. It has a format issue somewwhere. Likely invalid strand info or coordinate info for a feature<br class=""><div><br class=""></div><div>—Carson</div><div><br class=""><blockquote type="cite" class=""><div class="">On Aug 10, 2022, at 7:01 PM, Jingyin Yu <<a href="mailto:jy526@cornell.edu" class="">jy526@cornell.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><meta charset="UTF-8" class=""><div class="elementToProof" style="font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt;">Hello All,</div><div class="elementToProof" style="font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt;"><br class=""></div><div class="elementToProof" style="font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt;">I ran maker3 and got the error message, but did not get way how to solve it, </div><div class="elementToProof" style="font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt;">##############################################</div><div class="elementToProof" style="font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt;">ERROR: Unknown strand in GFFDB::_sort_exons!<div class="">--> rank=NA, hostname=swift</div><div class="">ERROR: Failed while doing repeat masking</div><div class="">ERROR: Chunk failed at level:0, tier_type:1</div><div class="">FAILED CONTIG:chr1</div><div class=""><br class=""></div><div class="">ERROR: Chunk failed at level:2, tier_type:0</div><div class="">FAILED CONTIG:chr1</div><div class=""><br class=""></div><div class="">examining contents of the fasta file and run log</div>##############################################</div><div style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class=""><div class="elementToProof" style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt;">I am not sure if you guys can give me some suggestions. Thanks a lot.</div><div class="elementToProof" style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt;"><br class=""></div><div class="elementToProof" style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt;">Best,<div class="">Jingyin</div><div class=""><br class=""></div></div><div id="Signature" class=""><div class=""><div style="font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt;" class=""><span class=""><div style="border-color: currentcolor; margin-bottom: 0px; margin-top: 0px;" class="">PostDoc, Boyce Thompson Institute for Plant Research</div><span style="background-color: rgb(255, 255, 255); font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; display: inline !important;" class=""></span><div style="border-color: currentcolor; margin-bottom: 0px; margin-top: 0px;" class="">Cornell University</div><span style="background-color: rgb(255, 255, 255); font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; display: inline !important;" class=""></span><div style="border-color: currentcolor; margin-bottom: 0px; margin-top: 0px;" class="">Ithaca, NY 14853</div><span style="background-color: rgb(255, 255, 255); font-family: Calibri, Arial, Helvetica, sans-serif; font-size: 12pt; display: inline !important;" class=""></span><div style="border-color: currentcolor; margin-bottom: 0px; margin-top: 0px;" class="">Email:<span class="Apple-converted-space"> </span><a href="mailto:jy526@cornell.edu" class="">jy526@cornell.edu</a><span class="Apple-converted-space"> </span></div><br class=""></span></div></div></div></div><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class="">_______________________________________________</span><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class=""><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class="">maker-devel mailing list</span><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class=""><a href="mailto:maker-devel@yandell-lab.org" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px;" class="">maker-devel@yandell-lab.org</a><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class=""><a href="http://yandell-lab.org/mailman/listinfo/maker-devel_yandell-lab.org" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px;" class="">http://yandell-lab.org/mailman/listinfo/maker-devel_yandell-lab.org</a></div></blockquote></div><br class=""></body></html>