X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=examples%2FformComplete.html;h=36adb22863da7ea704e3f2af0443227488db8104;hb=ad15cff29620f960119f80176f1fd443da9f6763;hp=fb1d7de735d5888890204418f47d1ffceeed8a5a;hpb=6fa12685f5a274baad0f65db6241de29b7e5dbbf;p=jalview.git diff --git a/examples/formComplete.html b/examples/formComplete.html index fb1d7de..36adb22 100644 --- a/examples/formComplete.html +++ b/examples/formComplete.html @@ -1,304 +1,251 @@ - - - - -JalviewLite Applet API and Form Complete Example - - - - - - - - - - -
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Please send problems
and - bug reports to the discussion list.
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- -
- 		-

 

- Click the Javascript buttons below to interact with the Applet - instance on the page.
- View the source in your browser to see how it has been done.
- The applet's public API methods are listed below - the following example.
- - - - - - - - - - - - - - - - -

-
-
Using the Jalview Applet for Input - to an HTML Form
-

-
-
-
-
Make a new View and Get and Set - Group Display List
-
-

-
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-
-

Since Jalview 2.5, the public methods listed - below are available to be called via Javascript.

-

Unfortunately Javascript - Java communication is not possible - using Internet Explorer or Opera on Macs. Please use Safari or - Firefox.

-

If more than one Jalview window is open, Jalview returns the - alignment in the active window, unless you provide an AlignFrame - object reference.

-

The alignment output format can be either Fasta, PFAM, Clustal, - MSF, PIR, or BLC.

-

When referring to the Jalview applet in javascript, you must - either give Jalview a name in the applet tag or use the applets index.

- - 
//get list of IDs of selected sequences
-public String getSelectedSequences()
-
-// list of IDs of selected sequences terminated by sep or, if sep is null, '¬' (¬)
-public String getSelectedSequences(sep)
-
-// get selected sequences as alignment as format with or without start-end suffix
-public String getSelectedSequencesAsAlignment(String format, boolean suffix)
-
-// get selected sequences as alignment from given view as format with or without start-end suffix
-public String getSelectedSequencesAsAlignmentFrom(AlignFrame alf, String format, boolean suffix)
-
-// get alignment as format
-public String getAlignment(String format)
-
-// get alignment as format with jalview 
-// start-end sequence suffix appended
-public String getAlignment(String format, String suffix)
-
-// get alignment displayed in alf as format
-public String getAlignmentFrom(AlignFrame alf, String format)
-
-// get alignment displayed in alf as format 
-// with jalview start-end sequence suffix appended
-public String getAlignmentFrom(AlignFrame alf, String format, String suffix)
-
-// add the given features or annotation to the current alignment
-public void loadAnnotation(String annotation)
-
-// add the given features or annotation to the given alignment view
-public void loadAnnotationFrom(AlignFrame alf, String annotation)
-
-// get the sequence features in the given format (Jalview or GFF)
-public String getFeatures(String format)
-
-// get the sequence features in alf in the given format (Jalview or GFF)
-public String getFeaturesFrom(AlignFrame alf, String format)
-
-// get current alignment's annotation as an annotation file
-public String getAnnotation()
-
-// get alignment view alf's annotation as an annotation file
-public String getAnnotationFrom(AlignFrame alf)
-
-// create a new view and return the alignFrame instance
-public AlignFrame newView()
-
-// create a new view named name and return the alignFrame instance
-public AlignFrame newView(String name)
-
-// create a new view on alf and return the alignFrame instance
-public AlignFrame newViewFrom(AlignFrame alf)
-
-// create a new view named name on alf 
-// and return the alignFrame instance
-public AlignFrame newViewFrom(AlignFrame alf, String name)
-
-// load a new alignment 
-public AlignFrame loadAlignment(String text, String title)
-
-// return separator separated list of feature groups 
-// on the current alignment
-public String getFeatureGroups()
-
-// return separator separated list of feature groups on alf
-public String getFeatureGroupsOn(AlignFrame alf)
-
-// return separator separated list of feature groups 
-// either visible or hidden
-public String getFeatureGroupsOfState(boolean state)
-
-// return separator separated list of feature groups 
-// either visible or hidden on alf
-public String getFeatureGroupsOfStateOn(AlignFrame alf, boolean state)
-
-// set the separator separated list of feature groups as 
-// visible or hidden on the current alignment
-public void setFeatureGroupState(String groupList, boolean state)
-
-// set the separator separated list of feature groups 
-// as visible or hidden on alf
-public void setFeatureGroupStateOn(AlignFrame alf, String groupList, boolean state)
-
-// helper functions
-
-// convert list to a separator separated array
-public String arrayToSeparatorList(String[] list) 
+
+  Access from Javascript
+   
+
+  
+  
+  
+  
+
+  
+
+  
+  
+  
 
-// get a string array from a list
-public String[] separatorListToArray(String list)
+
 
-// get the current separator
-public String getSeparator()
 
-// set the current separator
-public void setSeparator(String)
+
+
+
+  
+
+  
+  
+

+
+
 
-//// JalviewLite global state methods and fields
+

 
-// return the build date as a string
-public static String getBuildDate() 
 
-// return the JalviewLite version as a string
-public static String getVersion()
+
 
-// debug flag - controls output to standard out
-public static boolean debug
+

+

+

+ Examples aren't working ?
Try the unsigned applet demos
+

+

+
Quick Links to jars for example:
jalviewApplet.jar and JmolApplet.jar
+

+

+

 
-
+ +

JalviewLite API Demo

+

Using the Javascript API to fill out forms using data from JalviewLite +
Click the Javascript buttons below to interact with the Applet +instance on the page.

+View the source in your browser to see how it has been done.
+View the full JalviewLite API documentation. + + + + + + + + + + + + + + + + +

+
+
Using the Jalview Applet for Input + to an HTML Form
+

+
+
+
+
Make a new View and Get and Set + Group Display List
+
+

+
+
+
+
+ + + + + + + + + - +