<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=""><div class="">Dear All,</div><div class=""><br class=""></div><div class="">I re-installed Quartz as suggested. Then I have more verbose messages upon launching coot from the shell (See below). I don’t know if it is a general problem or a problem related to the configuration of my machine. </div><div class=""><br class=""></div><div class="">Thanks.</div><div class=""><br class=""></div><div class="">Benoit</div><div class=""><br class=""></div><div class=""><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">mmdcd-img2:bin B.Masquida$ ./coot</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">INFO:: Reading coordinate file: /Library/Coot/share/coot/standard-residues.pdb</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class=""> PDB file /Library/Coot/share/coot/standard-residues.pdb has been read.</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">Spacegroup: P 1</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">initalize graphics molecules...done.</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class=""><b class="">filter_fileselection_filenames_state ()</b></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class=""><b class="">get_active_map_drag_flag ()</b></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class=""><b class="">use_graphics_interface_state ()</b></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">INFO:: coot.py imported</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">INFO:: coot_python initialized</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">Running python script /Library/Coot/lib/python2.7/site-packages/coot/coot_load_modules.py</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">Good Morning B.masquida, Welcome to Coot. 0.8.3-pre</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class=""><b class="">set_display_intro_string ("Good Morning B.masquida, Welcome to Coot. 0.8.3-pre")</b></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">Coot Python Scripting GUI code found and loaded.</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">Coot Python Scripting GUI code found and loaded.</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class=""><b class="">use_graphics_interface_state ()</b></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class=""><b class="">filter_fileselection_filenames_state ()</b></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class=""><b class="">get_active_map_drag_flag ()</b></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">coot-bin: Fatal IO error 35 (Resource temporarily unavailable) on X server /private/tmp/com.apple.launchd.cTrzTueRvK/org.macosforge.xquartz:0.</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">coot-bin: Fatal IO error 35 (Resource temporarily unavailable) on X server /private/tmp/com.apple.launchd.cTrzTueRvK/org.macosforge.xquartz:0.</div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class="">mmdcd-img2:bin B.Masquida$ </div></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo;" class=""><br class=""></div><div class=""><br class=""></div><div class=""><br class=""></div><div class=""><br class=""></div><br class=""><div apple-content-edited="true" class="">
Benoît Masquida<br class=""><a href="mailto:b.masquida@unistra.fr" class="">b.masquida@unistra.fr</a><br class="">UMR 7156 GMGM<br class="">tel: +33 3 68 85 14 81<br class="">fax: +33 3 68 85 13 65<br class="">IPCB - Plateforme de Biologie<br class="">4 Allée Konrad Roentgen<br class="">67081 STRASBOURG Cedex
</div>
<br class=""><div><blockquote type="cite" class=""><div class="">Le 21 avr. 2016 à 17:10, Xiao Lei <<a href="mailto:xiaoleiusc@gmail.com" class="">xiaoleiusc@gmail.com</a>> a écrit :</div><br class="Apple-interchange-newline"><div class=""><p dir="ltr" class="">Hi BM,</p><p dir="ltr" class="">If it happens after you upgrade the system, you may try re-install the Xquartz.</p>
<div class="gmail_quote">On Apr 21, 2016 6:48 AM, "Benoît Masquida" <<a href="mailto:b.masquida@unistra.fr" class="">b.masquida@unistra.fr</a>> wrote:<br type="attribution" class=""><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Dear Phenix,<br class="">
<br class="">
The graphic window of coot does not open either launch from the shell or from Phenix GUI. Has anyone experienced (and solved) this problem on El Capitan (from Apple)?<br class="">
<br class="">
Thanks for your help.<br class="">
<br class="">
BM<br class="">
<br class="">
--<br class="">
Benoît Masquida<br class="">
<a href="mailto:b.masquida@unistra.fr" class="">b.masquida@unistra.fr</a><br class="">
UMR 7156 GMGM<br class="">
tel: <a href="tel:%2B33%203%2068%2085%2014%2081" value="+33368851481" class="">+33 3 68 85 14 81</a><br class="">
fax: <a href="tel:%2B33%203%2068%2085%2013%2065" value="+33368851365" class="">+33 3 68 85 13 65</a><br class="">
IPCB - Plateforme de Biologie<br class="">
4 Allée Konrad Roentgen<br class="">
67081 STRASBOURG Cedex<br class="">
<br class="">
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