Scene authoring tools: Difference between revisions

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To load a file that has a PDB ID, input the ID into the first input area and click the load button. The file will be fetched from the PDB database.

To load a file that is not part of the PDB, first upload the file to Proteopedia at [[Special:Upload]] (you can get there also by using the link called 'upload file' on the left hand column-toolbar of Proteopedia). Once a file has been uploaded, you can specify its name in the input area next to the words "From Proteopedia ~~upladed~~ file" and click load.

To load a file that is not part of the PDB, first upload the file to Proteopedia at [[Special:Upload]] (you can get there also by using the link called 'upload file' on the left hand column-toolbar of Proteopedia). Once a file has been uploaded, you can specify its name in the input area next to the words "From Proteopedia uploaded file" and click load.

Uploaded file can have various formats recognized by Jmol's "load" command. For example, you can load a .PNGJ file to load coordinates and a 3D scene in one step.

There is a checkbox to add calculated positions of hydrogen atoms to the structure as it is loaded. This allows to show the multiplicity of bonds (i.e. whether a bond is a single, double or triple bond) in the 3D scenes.

Another optional field allows to enter a text that will be used to filter which atoms of the original model will be either loaded or ignored. You can check the [{{ScriptingDoc}} Jmol Scripting Documentation] for details about the syntax of such filter specifications (in that page, search for <code style="color:maroon">load "filename" FILTER</code>).

=='load scene' tab==

Scene authoring tools: Difference between revisions

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 To load a file that has a PDB ID, input the ID into the first input area and click the load button.  The file will be fetched from the PDB database.
-To load a file that is not part of the PDB, first upload the file to Proteopedia at [[Special:Upload]] (you can get there also by using the link called 'upload file' on the left hand column-toolbar of Proteopedia).  Once a file has been uploaded, you can specify its name in the input area next to the words "From Proteopedia upladed file" and click load.
+To load a file that is not part of the PDB, first upload the file to Proteopedia at [[Special:Upload]] (you can get there also by using the link called 'upload file' on the left hand column-toolbar of Proteopedia).  Once a file has been uploaded, you can specify its name in the input area next to the words "From Proteopedia uploaded file" and click load.
 Uploaded file can have various formats recognized by Jmol's "load" command. For example, you can load a .PNGJ file to load coordinates and a 3D scene in one step.
 There is a checkbox to add calculated positions of hydrogen atoms to the structure as it is loaded. This allows to show the multiplicity of bonds (i.e. whether a bond is a single, double or triple bond) in the 3D scenes.
+Another optional field allows to enter a text that will be used to filter which atoms of the original model will be either loaded or ignored. You can check the [{{ScriptingDoc}} Jmol Scripting Documentation] for details about the syntax of such filter specifications (in that page, search for <code style="color:maroon">load "filename" FILTER</code>).
 =='load scene' tab==