User:Angel Herraez/Sandbox 8

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< User:Angel Herraez(Difference between revisions)
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Current revision (20:11, 30 September 2019) (edit) (undo)
(tests for tags of the JmolExtension)
 
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==Your Heading Here (maybe something like 'Structure')==
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== Test the extension ==
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<table style="width:100%;">
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...This uses the inlineContents tag:
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<tbody>
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<jmol>
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<tr>
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<size>220</size>
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<td style="border-width:1px; border-color:#d8dfda; border-style:solid; background-color:#FFF;vertical-align:text-top;">
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<color>#EEEEFF</color>
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<div id="SStextCell_0" style="overflow: auto; width: 100%; height: 431px;">
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<jmolApplet>
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<div id="SSapplethidden_0" style="display:none;">
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<inlineContents>
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</div>
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Menthol
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<div id="SStextshown_0">
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OpenBabel02151916433D
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<p>
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default text
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<ref>DOI 10.1002/ijch.201300024</ref>
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</p>
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<p>
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<br>
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</p>
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</div>
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</div>
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</td>
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<td>
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default text DOI 10.1002/ijch.201300024
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31 31 0 0 0 0 0 0 0 0999 V2000
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Info0.width = 340;Info0.height = 340;Info0.color = "white";Jmol.getApplet("jmolApplet1",Info0);Jmol.script(jmolApplet1,"set platformSpeed 5; DEFAULTPSPEED = 5; ");Jmol.script(jmolApplet1,"load models {0 0 1} /cgi-bin/getlateststructure?1stp.gz filter \"*.CA,*.P|HETATM,![HOH]\";script /wiki/extensions/Proteopedia/spt/initialview01.spt;");
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0.6797 1.2651 -0.2387 C 0 0 0 0 0 0 0 0 0 0 0 0
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1.3944 -0.0096 0.2024 C 0 0 0 0 0 0 0 0 0 0 0 0
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0.6695 -1.3027 -0.2371 C 0 0 2 0 0 0 0 0 0 0 0 0
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-0.8129 -1.2397 0.2137 C 0 0 1 0 0 0 0 0 0 0 0 0
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-1.5089 0.0539 -0.2208 C 0 0 0 0 0 0 0 0 0 0 0 0
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-0.7680 1.3033 0.2480 C 0 0 2 0 0 0 0 0 0 0 0 0
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-1.4711 2.5652 -0.2509 C 0 0 0 0 0 0 0 0 0 0 0 0
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-1.5752 -2.3115 -0.3340 O 0 0 0 0 0 0 0 0 0 0 0 0
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1.4325 -2.5688 0.2868 C 0 0 0 0 0 0 0 0 0 0 0 0
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0.7873 -3.8964 -0.1292 C 0 0 0 0 0 0 0 0 0 0 0 0
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2.8961 -2.5942 -0.1835 C 0 0 0 0 0 0 0 0 0 0 0 0
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1.2254 2.1343 0.1484 H 0 0 0 0 0 0 0 0 0 0 0 0
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0.7117 1.3341 -1.3336 H 0 0 0 0 0 0 0 0 0 0 0 0
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2.4050 0.0252 -0.2178 H 0 0 0 0 0 0 0 0 0 0 0 0
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1.5013 -0.0027 1.2947 H 0 0 0 0 0 0 0 0 0 0 0 0
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-1.6086 0.0630 -1.3151 H 0 0 0 0 0 0 0 0 0 0 0 0
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-2.5371 0.0569 0.1639 H 0 0 0 0 0 0 0 0 0 0 0 0
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0.6850 -1.3476 -1.3355 H 0 0 0 0 0 0 0 0 0 0 0 0
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-0.8654 -1.3281 1.3056 H 0 0 0 0 0 0 0 0 0 0 0 0
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-0.7714 1.3230 1.3457 H 0 0 0 0 0 0 0 0 0 0 0 0
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-1.4921 2.6034 -1.3455 H 0 0 0 0 0 0 0 0 0 0 0 0
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-0.9581 3.4631 0.1088 H 0 0 0 0 0 0 0 0 0 0 0 0
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-2.5048 2.6021 0.1085 H 0 0 0 0 0 0 0 0 0 0 0 0
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-1.4957 -2.2720 -1.3025 H 0 0 0 0 0 0 0 0 0 0 0 0
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1.4411 -2.5381 1.3844 H 0 0 0 0 0 0 0 0 0 0 0 0
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0.5863 -3.9212 -1.2054 H 0 0 0 0 0 0 0 0 0 0 0 0
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-0.1467 -4.0734 0.4111 H 0 0 0 0 0 0 0 0 0 0 0 0
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1.4390 -4.7445 0.1088 H 0 0 0 0 0 0 0 0 0 0 0 0
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2.9614 -2.5170 -1.2741 H 0 0 0 0 0 0 0 0 0 0 0 0
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3.3900 -3.5247 0.1184 H 0 0 0 0 0 0 0 0 0 0 0 0
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3.4778 -1.7803 0.2581 H 0 0 0 0 0 0 0 0 0 0 0 0
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1 2 1 0 0 0 0
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1 12 1 0 0 0 0
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1 13 1 0 0 0 0
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2 3 1 0 0 0 0
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2 14 1 0 0 0 0
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2 15 1 0 0 0 0
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3 4 1 1 0 0 0
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3 9 1 0 0 0 0
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3 18 1 0 0 0 0
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4 5 1 0 0 0 0
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4 8 1 0 0 0 0
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4 19 1 1 0 0 0
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5 6 1 0 0 0 0
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5 16 1 0 0 0 0
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5 17 1 0 0 0 0
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6 1 1 0 0 0 0
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6 7 1 0 0 0 0
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6 20 1 1 0 0 0
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7 21 1 0 0 0 0
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7 22 1 0 0 0 0
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7 23 1 0 0 0 0
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8 24 1 0 0 0 0
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9 10 1 0 0 0 0
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9 11 1 0 0 0 0
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9 25 1 0 0 0 0
 +
10 26 1 0 0 0 0
 +
10 27 1 0 0 0 0
 +
10 28 1 0 0 0 0
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11 29 1 0 0 0 0
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11 30 1 0 0 0 0
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11 31 1 0 0 0 0
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M END
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</inlineContents>
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</jmolApplet>
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</jmol>
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...end
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...This uses the wikiPageContents tag:
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<jmol>
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<size>220</size>
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<color>#EEEEFF</color>
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<jmolApplet>
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<wikiPageContents>Menthol</wikiPageContents>
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</jmolApplet>
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</jmol>
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...end
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...This uses the uploadedFileContents tag:
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<jmol>
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Jmol._Canvas2D (Jmol) "jmolApplet1" [x]
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<size>220</size>
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<color>#EEEEFF</color>
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i/extensions/jsmol/j2s/core/package.js
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<jmolApplet>
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<uploadedFileContents>Menthol.mol</uploadedFileContents>
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i/extensions/jsmol/j2s/core/core.z.js
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</jmolApplet>
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</jmol>
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-- required by ClazzNode
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...end
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Jmol JavaScript applet jmolApplet1__423981421885766__ initializing
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Jmol getValue debug null
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Jmol getValue logLevel null
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Jmol getValue allowjavascript null
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AppletRegistry.checkIn(jmolApplet1__423981421885766__)
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vwrOptions:
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{ "name":"jmolApplet1","applet":true,"documentBase":"http://proteopedia.org/wiki/index.php/User:Angel_Herraez/Sandbox_8","platform":"J.awtjs2d.Platform","fullName":"jmolApplet1__423981421885766__","codePath":"http:/wiki/extensions/jsmol/j2s/","display":"jmolApplet1_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"423981421885766","bgcolor":"white" }
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setting document base to "http://proteopedia.org/wiki/index.php/User:Angel_Herraez/Sandbox_8"
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(C) 2012 Jmol Development
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Jmol Version: 14.3.5_2014.08.09 2014-08-09 14:25
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java.vendor: Java2Script (HTML5)
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java.version: JSmol 14.2.4_2014.08.05
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os.name: Mozilla/5.0 (Windows NT 6.3; WOW64; rv:32.0) Gecko/20100101 Firefox/32.0
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Access: ALL
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memory: 0.0/0.0
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processors available: 1
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useCommandThread: false
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appletId:jmolApplet1 (signed)
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Jmol getValue emulate null
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defaults = "Jmol"
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Jmol getValue boxbgcolor null
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Jmol getValue bgcolor white
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backgroundColor = "white"
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Jmol getValue ANIMFRAMECallback null
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Jmol getValue APPLETREADYCallback Jmol._readyCallback
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APPLETREADYCallback = "Jmol._readyCallback"
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Jmol getValue ATOMMOVEDCallback null
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Jmol getValue CLICKCallback null
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Jmol getValue DRAGDROPCallback null
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Jmol getValue ECHOCallback null
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Jmol getValue ERRORCallback null
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Jmol getValue EVALCallback null
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Jmol getValue HOVERCallback null
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Jmol getValue LOADSTRUCTCallback null
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Jmol getValue MEASURECallback null
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Jmol getValue MESSAGECallback null
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Jmol getValue MINIMIZATIONCallback null
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Jmol getValue PICKCallback null
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Jmol getValue RESIZECallback null
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Jmol getValue SCRIPTCallback null
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Jmol getValue SYNCCallback null
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Jmol getValue STRUCTUREMODIFIEDCallback null
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Loading language resource http:/wiki/extensions/jsmol/idioma/es.po
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FileManager opening 1 http://proteopedia.org/wiki/extensions/jsmol/idioma/es.po
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562 translations loaded
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Jmol getValue doTranslate null
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language=es
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Jmol getValue popupMenu null
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Jmol getValue script null
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Jmol getValue loadInline null
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Jmol getValue load null
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Jmol applet jmolApplet1__423981421885766__ ready
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i/extensions/jsmol/j2s/core/corescript.z.js
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script 1 started
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pdbGetHeader = true
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i/extensions/jsmol/j2s/core/coretext.z.js
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Loading, please wait ...
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platformSpeed = 5
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FileManager.getAtomSetCollectionFromFile(/cgi-bin/getlateststructure?1stp.gz)
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FileManager opening 1 http://proteopedia.org/cgi-bin/getlateststructure?1stp.gz
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i/extensions/jsmol/j2s/core/corezip.z.js
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The Resolver thinks Pdb
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i/extensions/jsmol/j2s/core/corebio.z.js
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i/extensions/jsmol/j2s/J/render/MeshRenderer.js
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-- required by J.renderbio.BioShapeRenderer
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i/extensions/jsmol/j2s/J/shape/Mesh.js
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filtering with ;*.CA;*.P|HETATM-Y;![HOH];
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BIOTIN BINDING PROTEIN 12-MAR-92 1STP
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STRUCTURAL ORIGINS OF HIGH-AFFINITY BIOTIN BINDING TO STREPTAVIDIN
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found biomolecule 1: A
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biomolecule 1: number of transforms: 4
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Time for openFile(/cgi-bin/getlateststructure?1stp.gz): 595 ms
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reading 137 atoms
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ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
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1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
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Default Van der Waals type for model set to Jmol
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137 atoms created
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ModelSet: autobonding; use autobond=false to not generate bonds automatically
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BIOTIN BINDING PROTEIN 12-MAR-92 1STP
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STRUCTURAL ORIGINS OF HIGH-AFFINITY BIOTIN BINDING TO STREPTAVIDIN
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found biomolecule 1: A
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Adding embedded #jmolscript: select ({0:120});backbone only;select *;
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i/extensions/jsmol/j2s/core/corescriptmath.z.js
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FileManager opening 1 http://proteopedia.org/wiki/extensions/Proteopedia/spt/initialview01.spt
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i/extensions/jsmol/j2s/JV/PropertyManager.js
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i/extensions/jsmol/j2s/core/coreprop.z.js
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-- required by JV.PropertyManager
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FileManager opening 1 http://proteopedia.org/wiki/extensions/Proteopedia/spt/initialview02.spt
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Displaying simplified model
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0 átomos ocultos
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i/extensions/jsmol/j2s/J/thread/SpinThread.js
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Script completed
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Jmol script terminated
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i/extensions/jsmol/j2s/J/g3d/HermiteRenderer.js
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spinFPS is set too fast (30) -- can't keep up!
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Jmol.jmolButton(jmolApplet1,"if(_spinning);spin off;spinflag = false;else;spin on;spinflag = true;endif","toggle spin");
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Jmol.jmolButton(jmolApplet1,"set refreshing off;if(antialiasDisplay);antialiasDisplay = false;antialiasDisplayFlag = false;else;antialiasDisplay = true;antialiasDisplayFlag = true;endif;set refreshing on;refresh;","toggle quality");
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Caption for this structure
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</td>
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</tr>
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</tbody>
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</table>
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== References ==
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<references/>
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Current revision

Test the extension

...This uses the inlineContents tag:

Drag the structure with the mouse to rotate

...end

...This uses the wikiPageContents tag:

Drag the structure with the mouse to rotate

...end

...This uses the uploadedFileContents tag:

Drag the structure with the mouse to rotate

...end

Proteopedia Page Contributors and Editors (what is this?)

Angel Herraez

Personal tools