sequenceserver 3.1.2 → 3.1.3

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (41) hide show
  1. checksums.yaml +4 -4
  2. data/lib/sequenceserver/blast/tasks.rb +1 -1
  3. data/lib/sequenceserver/routes.rb +1 -1
  4. data/lib/sequenceserver/version.rb +1 -1
  5. data/lib/sequenceserver.rb +1 -1
  6. data/public/css/app.min.css +1 -1
  7. data/public/css/sequenceserver.css +0 -18
  8. data/public/css/sequenceserver.min.css +2 -2
  9. data/public/js/alignment_exporter.js +16 -28
  10. data/public/js/cloud_share_modal.js +42 -42
  11. data/public/js/form.js +12 -10
  12. data/public/js/grapher.js +4 -4
  13. data/public/js/hit.js +3 -3
  14. data/public/js/hits.js +276 -0
  15. data/public/js/jquery_world.js +1 -1
  16. data/public/js/mailto.js +1 -3
  17. data/public/js/null_plugins/report_plugins.js +1 -0
  18. data/public/js/options.js +2 -6
  19. data/public/js/query.js +1 -1
  20. data/public/js/report.js +68 -252
  21. data/public/js/report_root.js +7 -5
  22. data/public/js/search.js +28 -11
  23. data/public/js/sequence.js +158 -158
  24. data/public/js/sequence_modal.js +28 -36
  25. data/public/js/sidebar.js +7 -6
  26. data/public/js/tests/alignment_exporter.spec.js +38 -0
  27. data/public/js/tests/cloud_share_modal.spec.js +75 -0
  28. data/public/js/tests/report.spec.js +37 -15
  29. data/public/packages/jquery-ui@1.13.3.js +19070 -0
  30. data/public/sequenceserver-report.min.js +3 -2481
  31. data/public/sequenceserver-report.min.js.LICENSE.txt +300 -0
  32. data/public/sequenceserver-report.min.js.map +1 -0
  33. data/public/sequenceserver-search.min.js +3 -2382
  34. data/public/sequenceserver-search.min.js.LICENSE.txt +292 -0
  35. data/public/sequenceserver-search.min.js.map +1 -0
  36. data/views/layout.erb +3 -7
  37. data/views/search.erb +1 -1
  38. data/views/search_layout.erb +1 -1
  39. metadata +11 -5
  40. data/public/config.js +0 -147
  41. data/public/packages/jquery-ui@1.11.4.js +0 -16624
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+ /*!
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+ * jQuery Browser Plugin v0.0.6
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+ * https://github.com/gabceb/jquery-browser-plugin
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+ *
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+ * Original jquery-browser code Copyright 2005, 2013 jQuery Foundation, Inc. and other contributors
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+ * http://jquery.org/license
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+ *
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+ * Modifications Copyright 2013 Gabriel Cebrian
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+ * https://github.com/gabceb
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+ *
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+ * Released under the MIT license
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+ *
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+ * Date: 2013-07-29T17:23:27-07:00
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+ */
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+
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+ /*!
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+ * jQuery JavaScript Library v3.7.1
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+ * https://jquery.com/
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license
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+ * https://jquery.org/license
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+ *
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+ * Date: 2023-08-28T13:37Z
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+ */
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+
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+ /*!
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+ * jQuery UI :data 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Autocomplete 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Button 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Checkboxradio 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Controlgroup 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Datepicker 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Dialog 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Draggable 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Droppable 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Effects 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Focusable 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Position 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ *
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+ * https://api.jqueryui.com/position/
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+ */
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+
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+ /*!
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+ * jQuery UI Resizable 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Spinner 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Support for jQuery core 1.8.x and newer 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ *
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+ */
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+
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+ /*!
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+ * jQuery UI Tabs 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Tooltip 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*!
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+ * jQuery UI Widget 1.13.3
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+ * https://jqueryui.com
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+ *
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+ * Copyright OpenJS Foundation and other contributors
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+ * Released under the MIT license.
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+ * https://jquery.org/license
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+ */
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+
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+ /*! jQuery UI - v1.13.3 - 2024-04-26
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+ * https://jqueryui.com
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+ * Includes: widget.js, position.js, data.js, disable-selection.js, effect.js, effects/effect-blind.js, effects/effect-bounce.js, effects/effect-clip.js, effects/effect-drop.js, effects/effect-explode.js, effects/effect-fade.js, effects/effect-fold.js, effects/effect-highlight.js, effects/effect-puff.js, effects/effect-pulsate.js, effects/effect-scale.js, effects/effect-shake.js, effects/effect-size.js, effects/effect-slide.js, effects/effect-transfer.js, focusable.js, form-reset-mixin.js, jquery-patch.js, keycode.js, labels.js, scroll-parent.js, tabbable.js, unique-id.js, widgets/accordion.js, widgets/autocomplete.js, widgets/button.js, widgets/checkboxradio.js, widgets/controlgroup.js, widgets/datepicker.js, widgets/dialog.js, widgets/draggable.js, widgets/droppable.js, widgets/menu.js, widgets/mouse.js, widgets/progressbar.js, widgets/resizable.js, widgets/selectable.js, widgets/selectmenu.js, widgets/slider.js, widgets/sortable.js, widgets/spinner.js, widgets/tabs.js, widgets/tooltip.js
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+ * Copyright OpenJS Foundation and other contributors; Licensed MIT */
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+
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+ /*! regenerator-runtime -- Copyright (c) 2014-present, Facebook, Inc. -- license (MIT): https://github.com/facebook/regenerator/blob/main/LICENSE */
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+
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+ /**
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+ * @license React
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+ * react-dom.development.js
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+ *
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+ * Copyright (c) Facebook, Inc. and its affiliates.
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+ *
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+ * This source code is licensed under the MIT license found in the
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+ * LICENSE file in the root directory of this source tree.
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+ */
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+
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+ /**
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+ * @license React
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+ * react-jsx-runtime.development.js
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+ *
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+ * Copyright (c) Facebook, Inc. and its affiliates.
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+ *
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+ * This source code is licensed under the MIT license found in the
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+ * LICENSE file in the root directory of this source tree.
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+ */
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+
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+ /**
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+ * @license React
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+ * scheduler.development.js
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+ *
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+ * Copyright (c) Facebook, Inc. and its affiliates.
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+ *
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+ * This source code is licensed under the MIT license found in the
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+ * LICENSE file in the root directory of this source tree.
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+ */
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+
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+ /**
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+ * Checks if an event is supported in the current execution environment.
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+ *
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+ * NOTE: This will not work correctly for non-generic events such as `change`,
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+ * `reset`, `load`, `error`, and `select`.
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+ *
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+ * Borrows from Modernizr.
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+ *
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+ * @param {string} eventNameSuffix Event name, e.g. "click".
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+ * @return {boolean} True if the event is supported.
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+ * @internal
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+ * @license Modernizr 3.0.0pre (Custom Build) | MIT
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+ */
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+
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+ /**
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+ * chroma.js - JavaScript library for color conversions
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+ *
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+ * Copyright (c) 2011-2019, Gregor Aisch
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+ * All rights reserved.
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+ *
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+ * Redistribution and use in source and binary forms, with or without
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+ * modification, are permitted provided that the following conditions are met:
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+ *
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+ * 1. Redistributions of source code must retain the above copyright notice, this
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+ * list of conditions and the following disclaimer.
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+ *
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+ * 2. Redistributions in binary form must reproduce the above copyright notice,
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+ * this list of conditions and the following disclaimer in the documentation
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+ * and/or other materials provided with the distribution.
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+ *
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+ * 3. The name Gregor Aisch may not be used to endorse or promote products
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+ * derived from this software without specific prior written permission.
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+ *
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+ * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
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+ * AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
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+ * IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
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+ * DISCLAIMED. IN NO EVENT SHALL GREGOR AISCH OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT,
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+ * INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING,
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+ * BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE,
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+ * DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY
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+ * OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
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+ * NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
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+ * EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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+ *
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+ * -------------------------------------------------------
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+ *
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+ * chroma.js includes colors from colorbrewer2.org, which are released under
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+ * the following license:
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+ *
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+ * Copyright (c) 2002 Cynthia Brewer, Mark Harrower,
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+ * and The Pennsylvania State University.
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+ *
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+ * Licensed under the Apache License, Version 2.0 (the "License");
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+ * you may not use this file except in compliance with the License.
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+ * You may obtain a copy of the License at
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+ * http://www.apache.org/licenses/LICENSE-2.0
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+ *
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+ * Unless required by applicable law or agreed to in writing,
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+ * software distributed under the License is distributed on an
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+ * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND,
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+ * either express or implied. See the License for the specific
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+ * language governing permissions and limitations under the License.
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+ *
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+ * ------------------------------------------------------
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+ *
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+ * Named colors are taken from X11 Color Names.
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+ * http://www.w3.org/TR/css3-color/#svg-color
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+ *
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+ * @preserve
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+ */
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+
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+ /** @preserve http://github.com/easeway/js-class */