Ticket #14962: chimerax-log-1.html

File chimerax-log-1.html, 6.2 KB (added by Ute.Roehrig@…, 19 months ago)

Added by email2trac

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1<html>
2<head>
3<meta charset='utf-8'>
4<title> ChimeraX Log </title>
5<script type="text/javascript">
6window.onload = function() {
7 cxlinks_base="http://www.rbvi.ucsf.edu/chimerax/docs/"
8 if(!window.navigator.userAgent.includes("ChimeraX")){
9 window.onclick = function(e){
10 if(e.target.tagName.toLowerCase()!="a")
11 return true;
12 var url=e.target.getAttribute("href").toLowerCase();
13 if(url.startsWith("help:")){
14 window.location.href = cxlinks_base + url.substring(5);
15 return false;
16 }
17 if(url.startsWith("cxcmd:")){
18 alert("This link only works in a ChimeraX browser and would execute a command.");
19 return false;
20 }
21 return true;
22 }
23 var ls=document.links;
24 for(var i=0;i<ls.length;i++){
25 var link=ls[i];
26 var url=link.getAttribute("href").toLowerCase();
27 if(url.startsWith("cxcmd:"))
28 link.style.color="darkred";
29 }
30 }
31};
32</script>
33</head>
34<h1> ChimeraX Log </h1>
35<style>
36
37.cxcmd {
38 display: block;
39 font-weight: bold;
40 margin-top: .5em;
41 background-color: #ddd;
42}
43a.no_underline {
44 text-decoration: none;
45}
46
47.cxcmd_as_doc {
48 display: none;
49}
50.cxcmd_as_cmd {
51 display: inline;
52}
53</style>
54
55<table border=1 cellpadding=4 cellspacing=0>
56 <thead>
57 <tr>
58 <th colspan="2">Startup Messages</th>
59 </tr>
60 </thead>
61 <tbody>
62 <tr>
63 <td><i>warning</i></td> <td style="background-color:#ffb961">Replacing fetcher for &#x27;pdb_nmr&#x27; and format NMRSTAR from NMRSTAR bundle with that from NMRSTAR bundle</td> </tr>
64 </tbody>
65</table><br/>UCSF ChimeraX version: 1.7.1 (2024-01-23)<br>
66© 2016-2023 Regents of the University of California. All rights reserved.<br>
67<a href="cxcmd:help help:credits.html">How to cite UCSF ChimeraX</a><br/><div class="cxcmd"><div class="cxcmd_as_doc"><a href="help:user/commands/open.html">open</a> 2wgj format mmcif fromDatabase pdb</div><div class="cxcmd_as_cmd"><a href="cxcmd:open 2wgj format mmcif fromDatabase pdb">open 2wgj format mmcif fromDatabase pdb</a></div></div><i>2wgj</i> title:<br><b>X-ray Structure of PF-02341066 bound to the kinase domain of c-Met</b> <a href="cxcmd:log metadata #1">[more&nbsp;info...]</a><br><br/><table border=1 cellpadding=4 cellspacing=0>
68 <thead>
69 <tr>
70 <th colspan="3">Chain information for 2wgj #1</th>
71 </tr>
72 <tr>
73 <th>Chain</th>
74 <th>Description</th>
75 <th>UniProt</th>
76 </tr>
77 </thead>
78 <tbody>
79 <tr>
80 <td style="text-align:center"><a title="Select chain" href="cxcmd:select /A:1052-1345">A</a></td>
81 <td><a title="Show sequence" href="cxcmd:sequence chain #1/A">HEPATOCYTE GROWTH FACTOR RECEPTOR</a></td>
82 <td style="text-align:center"><a title="Show annotations" href="cxcmd:open P08581 from uniprot associate #1/A">MET_HUMAN</a> <a title="Select sequence" href="cxcmd:select #1/A:1051-1348">1051-1348</a></td>
83 </tr>
84 </tbody>
85</table><br/><table border=1 cellpadding=4 cellspacing=0>
86 <thead>
87 <tr>
88 <th>Non-standard residues in 2wgj #1</th>
89 </tr>
90 </thead>
91 <tbody>
92 <tr>
93 <td><a title="select residue" href="cxcmd:sel :VGH">VGH</a> &mdash; <a title="show residue info" href="http://www.rcsb.org/ligand/VGH">3-[(1R)-1-(2,6-dichloro-3-fluorophenyl)ethoxy]-5-(1-piperidin-4-yl-1H-pyrazol-4-yl)pyridin-2-amine</a> (crizotinib)</td>
94 </tr>
95 </tbody>
96</table><br/><div class="cxcmd"><div class="cxcmd_as_doc"><a href="help:user/commands/ui.html#tool-show">ui tool show</a> &quot;Color Actions&quot;</div><div class="cxcmd_as_cmd"><a href="cxcmd:ui tool show &quot;Color Actions&quot;">ui tool show &quot;Color Actions&quot;</a></div></div><font color="crimson"><b>No target buttons for the coloring action are checked<br>
97</b></font><p style="color:darkorange">Failed to send bug report. Error while sending follows:<br>
98</p>Traceback (most recent call last):<br>
99 File &quot;/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/bug_reporter/bug_reporter_gui.py&quot;, line 245, in submit<br>
100 errcode, errmsg, headers, body = post_multipart_formdata(BUG_HOST, BUG_SELECTOR, fields, timeout=10)<br>
101 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^<br>
102 File &quot;/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/webservices/post_form.py&quot;, line 40, in post_multipart_formdata<br>
103 h.request(&#x27;POST&#x27;, url, body=body, headers=headers)<br>
104 File &quot;/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/http/client.py&quot;, line 1282, in request<br>
105 self._send_request(method, url, body, headers, encode_chunked)<br>
106 File &quot;/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/http/client.py&quot;, line 1328, in _send_request<br>
107 self.endheaders(body, encode_chunked=encode_chunked)<br>
108 File &quot;/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/http/client.py&quot;, line 1277, in endheaders<br>
109 self._send_output(message_body, encode_chunked=encode_chunked)<br>
110 File &quot;/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/http/client.py&quot;, line 1037, in _send_output<br>
111 self.send(msg)<br>
112 File &quot;/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/http/client.py&quot;, line 975, in send<br>
113 self.connect()<br>
114 File &quot;/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/http/client.py&quot;, line 941, in connect<br>
115 self.sock = self._create_connection(<br>
116 ^^^^^^^^^^^^^^^^^^^^^^^^<br>
117 File &quot;/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/socket.py&quot;, line 851, in create_connection<br>
118 raise exceptions[0]<br>
119 File &quot;/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/socket.py&quot;, line 836, in create_connection<br>
120 sock.connect(sa)<br>
121ConnectionRefusedError: [Errno 61] Connection refused<br>
122</body>
123</html>