Difference between revisions of "WebApollo Embed"

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(Undo revision 24654 by Mckays (talk))
Line 27: Line 27:
 
* We can't just create a symbolic link to the base WebApollo installation because some of the internal components are real files
 
* We can't just create a symbolic link to the base WebApollo installation because some of the internal components are real files
  
  [[File:clone.jpg]]
+
  WebApollo_clone
 +
  |-- META-INF -> symlink
 +
  |-- WEB-INF -> symlink
 +
  |-- <b><font color=red>annotations</font></b>
 +
  |-- config
 +
  |  |-- blat_config.xml -> symlink
 +
  |  |-- canned_comments.xml -> symlink
 +
  |  |-- chado_config.xml -> symlink
 +
  |  |-- <b><font color=red>config.xml</font></b>
 +
  |  |-- gff3_config.xml -> symlink
 +
  |  |-- hibernate.xml -> symlink
 +
  |  |-- mapping.xml -> symlink
 +
  |  |-- track_name_comparator.js -> symlink
 +
  |  `-- translation_tables -> symlink
 +
  |-- images -> symlink
 +
  |-- index.html -> symlink
 +
  |-- jbrowse
 +
  |  |-- bin -> symlink
 +
  |  |-- combination_tracks.css -> symlink
 +
  |  |-- data
 +
  |  |  |-- names -> symlink
 +
  |  |  |-- seq -> symlink
 +
  |  |  |-- trackList.json
 +
  |  |  `-- <b><font color=red>tracks</font></b>
 +
  |  |      `-- EG -> symlink
 +
  |  |-- export_dialog.css -> symlink
 +
  |  |-- faceted_track_selector.css -> symlink
 +
  |  |-- file_dialog.css -> symlink
 +
  |  |-- genome.css -> symlink
 +
  |  |-- icons.css -> symlink
 +
  |  |-- img -> symlink
 +
  |  |-- index.html -> symlink
 +
  |  |-- jbrowse_conf.json -> symlink
 +
  |  |-- main.css -> symlink
 +
  |  |-- maker.css -> symlink
 +
  |  |-- menubar.css -> symlink
 +
  |  |-- plugins -> symlink
 +
  |  |-- sample_data -> symlink
 +
  |  |-- src -> symlink
 +
  |  `-- track_styles.css -> symlink
 +
  |-- js -> symlink
 +
  |-- jslib -> symlink
 +
  |-- selectTrack.jsp -> symlink
 +
  |-- styles -> symlink
 +
  |-- <b><font color=red>tmp</font></b>
 +
  |-- userPermissions.jsp -> symlink
 +
  `-- user_interfaces -> symlink

Revision as of 17:33, 8 October 2013

Work in progress: come back later

Description of setting up WebApollo as an embedded web application

Use case

  1. Run WebApollo as an integrated component of a web application
  2. Support multiple species
  3. Support multiple users with private editing session
    • Users can have multiple projects/species
  4. Jump straight to edit mode without user login

Installation

  1. Use the regular installation/configuration procedure
  2. Use exemplar species sequence annotations, we will add multiple species support below

Unsorted odds and ends

The key thing that must be done for multiple species/users/sessions on one server is creating multiple tomcat webapps by cloning the WebApollo Directory tree.

Demo user.png Refseqs.png Refseqs in db.png


Anatomy of a WebApollo clone

  • The clone of the webapp is almost entirely symbolic links, except where otherwise noted.
  • We can't just create a symbolic link to the base WebApollo installation because some of the internal components are real files
WebApollo_clone
 |-- META-INF -> symlink
 |-- WEB-INF -> symlink
 |-- annotations
 |-- config
 |   |-- blat_config.xml -> symlink
 |   |-- canned_comments.xml -> symlink
 |   |-- chado_config.xml -> symlink
 |   |-- config.xml
 |   |-- gff3_config.xml -> symlink
 |   |-- hibernate.xml -> symlink
 |   |-- mapping.xml -> symlink
 |   |-- track_name_comparator.js -> symlink
 |   `-- translation_tables -> symlink
 |-- images -> symlink
 |-- index.html -> symlink
 |-- jbrowse
 |   |-- bin -> symlink
 |   |-- combination_tracks.css -> symlink
 |   |-- data
 |   |   |-- names -> symlink
 |   |   |-- seq -> symlink
 |   |   |-- trackList.json
 |   |   `-- tracks
 |   |       `-- EG -> symlink 
 |   |-- export_dialog.css -> symlink
 |   |-- faceted_track_selector.css -> symlink
 |   |-- file_dialog.css -> symlink
 |   |-- genome.css -> symlink
 |   |-- icons.css -> symlink
 |   |-- img -> symlink
 |   |-- index.html -> symlink
 |   |-- jbrowse_conf.json -> symlink
 |   |-- main.css -> symlink
 |   |-- maker.css -> symlink
 |   |-- menubar.css -> symlink
 |   |-- plugins -> symlink
 |   |-- sample_data -> symlink
 |   |-- src -> symlink
 |   `-- track_styles.css -> symlink
 |-- js -> symlink
 |-- jslib -> symlink
 |-- selectTrack.jsp -> symlink
 |-- styles -> symlink
 |-- tmp
 |-- userPermissions.jsp -> symlink
 `-- user_interfaces -> symlink