1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
|
<html>
<head>
<meta http-equiv="Pragma" content="no-cache"/>
<meta http-equiv="Cache-Control" content="no-cache"/>
<meta http-equiv="Expires" content="-1" />
<title>Web Services - Sample 12: Multi-Origin with JavaScript API</title>
<style><!--
a{text-decoration:none;
padding: 1px;
background-color: #dddddd}
--></style>
<script src="json2.js"></script>
<script src="pymol.js"></script>
<script type="text/javascript">
// This page assumes that PyMOL is running on localhost:8082
var pymol = new PyMOL('localhost',8082); // create PyMOL object instance for server of this page
var cmd = pymol.cmd; // assign a global symbol for the PyMOL cmd API
function part4(list) {
for(var i=0;i<list.length;i++) {
cmd.color("auto","chain "+list[i]);
}
}
function part3(list) {
cmd.show_as("cartoon");
cmd.get_chains(part4, "polymer");
}
function part2() {
cmd.load(part3, "$PYMOL_PATH/test/dat/1tii.pdb");
}
function part1() {
cmd.reinitialize(part2);
}
</script>
</head>
<body>
<h3>Web Services - Sample 12: Multi-Origin with JavaScript API</h3>
<a href="http://localhost:8082/apply/_quit?href">quit pymol</a>
(FireFox only: <a href="javascript:void(0)" onclick="window.open('view-source:' + location.href)">view page source</a>)
<p>PyMOL should open up automatically when this page is loaded because
we have an hidden IFRAME referencing a PWG file which tells PyMOL
to launch and listen on port 8082.</p>
<p>In the multi-origin scenario, the host and port of the PyMOL server
must be specified when creating the PyMOL object inside
JavaScript: </p>
<pre>
var pymol = new PyMOL('localhost',8082); // create PyMOL object instance for server of this page
var cmd = pymol.cmd; // assign a global symbol for the PyMOL cmd API
</pre>
<p>The other main difference is that in the multi-origin
(cross-domain) scenario, all PyMOL requests run <i>asynchronously</i>
and in an <i>undefined</i> order (in certain browsers). Any results
to be acted on must be procesed through a call-back mechanism, and any
dependencies of PyMOL state which exist must be broken out across
separate function calls. See sample 14 for a practical to this problem
of asynchronous execution.</p>
<p>The convention we have adopted for doing this is quite simple: you
merely provide the callback function as the first argument to the
method. The Javascript API automatically recognizes this pattern and
removes that argument before sending the remaining arguments over to
PyMOL.</p>
<pre>
function part4(list) { for(var i=0;i<list.length;i++) {
cmd.color("auto","chain "+list[i]); } }
function part3(list) {
cmd.show_as("cartoon");
cmd.get_chains(part4, "polymer");
}
function part2() {
cmd.load(part3, "$PYMOL_PATH/test/dat/1tii.pdb");
}
function part1() {
cmd.reinitialize(part2);
}
Start the cascade with a call to <a href="javascript:part1()">part1()</a>
</pre>
<p>For a solution to the awkward complexity presented by the above
example, please see Sample 14.</p>
<p>Also, exceptions which occur in PyMOL are not presently returned to
the JavaScript layer (though this may change).</p>
<!-- the only purpose of this IFRAME is to launch PyMOL via the PWG
-- helper mechanism -->
<iframe src="start8082.pwg"
width="0" height="0" frameborder="0"
marginheight="0" marginwidth="0"
scrolling="auto"></iframe>
</body>
</html>
|
