<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>This is one of those things that I would have to have access to your system since I can't duplicate it and it is only happening to you.</div><div><br></div><div>If you can swing a temporary ssh account, I can look at it. But it's really just a shot in the dark otherwise.</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> Dave Messina <<a href="mailto:online@davemessina.com">online@davemessina.com</a>><br><span style="font-weight:bold">Date: </span> Monday, May 5, 2014 at 1:53 PM<br><span style="font-weight:bold">To: </span> Carson Holt <<a href="mailto:carsonhh@gmail.com">carsonhh@gmail.com</a>><br><span style="font-weight:bold">Cc: </span> <<a href="mailto:maker-devel@yandell-lab.org">maker-devel@yandell-lab.org</a>><br><span style="font-weight:bold">Subject: </span> Re: [maker-devel] MAKER / RepeatRunner configuration issue<br></div><div><br></div><div dir="ltr"><div class="gmail_extra">Hi Carson,</div><div class="gmail_extra"><br><div class="gmail_quote">On Mon, May 5, 2014 at 2:44 PM, Carson Holt <span dir="ltr"><<a href="mailto:carsonhh@gmail.com" target="_blank">carsonhh@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex"><div>df -h /Volumes/Qnap/projects/projectAnwar_SNGN0016AA-A</div></blockquote></div><div class="gmail_extra"><br></div><div class="gmail_extra"><div class="gmail_extra">Filesystem Type Size Used Avail Use% Mounted on</div><div class="gmail_extra">10.0.1.128:/projects</div><div class="gmail_extra">
nfs 13T 9.6T 3.1T 76% /Volumes/Qnap</div></div><br>That one is on NFS, although the second tarball I uploaded was done in the /tmp dir, and that's on a local disk:</div><div class="gmail_extra"><br></div><div class="gmail_extra"><div class="gmail_extra">Filesystem Type Size Used Avail Use% Mounted on</div><div class="gmail_extra">/dev/mapper/vg_d5-lv_root</div><div class="gmail_extra"> ext4 50G 8.9G 38G 19% /</div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex"><ol style="color:rgb(0,0,0);font-family:Calibri,sans-serif;font-size:14.399999618530273px"><li>Is you /tmp directory full (or whatever you have $TMPDIR environmental variable is set to). Use 'df -h /tmp' to check.</li></ol></blockquote><div><br></div><div><div>$ df -h /tmp</div><div>Filesystem Type Size Used Avail Use% Mounted on</div><div>/dev/mapper/vg_d5-lv_root</div><div> ext4 50G 8.9G 38G 19% /</div></div><div> <br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex"><ol style="color:rgb(0,0,0);font-family:Calibri,sans-serif;font-size:14.399999618530273px"><li>Are you running in a directory on an NFS drive? Is it true NFS or is it something like FUSE.</li></ol></blockquote><div>Same error on true NFS or on local disk.</div><div><br></div><div> </div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex"><ol style="color:rgb(0,0,0);font-family:Calibri,sans-serif;font-size:14.399999618530273px"><li>Is your current working directory full.</li></ol></blockquote><div>No.</div><div><br></div><div> </div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex"><ol style="color:rgb(0,0,0);font-family:Calibri,sans-serif;font-size:14.399999618530273px"><li>Are you setting TMP= in the control files to either an NFS mounted location or an in memory mounted location. Same issue if you are setting the system's TMPDIR environmental variable to one of these.</li></ol></blockquote><div>I tried setting it to /tmp just to be sure (no difference).</div><div> </div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex"><ol style="color:rgb(0,0,0);font-family:Calibri,sans-serif;font-size:14.399999618530273px"><li>Is your default /tmp directory in fact locally mounted (some clusters set this to in memory scratch).</li></ol></blockquote><div>
Yes.</div><div> </div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex"><ol style="color:rgb(0,0,0);font-family:Calibri,sans-serif;font-size:14.399999618530273px"><li>Even though you already checked, humor me and run this exact command --> /Volumes/Qnap/external/Linux_x86_64/ncbi-blast/bin/blastx -version</li></ol></blockquote><div class="gmail_extra"><br></div><div class="gmail_extra">
$ /Volumes/Qnap/external/Linux_x86_64/ncbi-blast/bin/blastx -version<br></div><div class="gmail_extra"><div class="gmail_extra">blastx: 2.2.28+</div><div class="gmail_extra">Package: blast 2.2.28, build Mar 12 2013 16:52:31</div></div><div class="gmail_extra"><br></div><div class="gmail_extra"><br></div><div class="gmail_extra"><br></div><div class="gmail_extra">Thanks so much for your help.</div><div class="gmail_extra"><br></div><div class="gmail_extra"><div class="gmail_extra">Best,</div><div class="gmail_extra">Dave</div><div><br></div><div><br></div></div><div class="gmail_extra"><br></div><div class="gmail_extra"><br></div></div></div></span></body></html>