From: Ben Soares <b.soares@dundee.ac.uk>
Date: Tue, 21 Nov 2023 15:54:40 +0000 (+0000)
Subject: JAL-4238 test files for PAE in jalviewjs
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=5d7f47edb99cb1bc3f9928e213a5b8b3adec6f1f;p=jalview.git

JAL-4238 test files for PAE in jalviewjs
---

diff --git a/utils/jalviewjs/site-resources/examples/pae-example.jvp b/utils/jalviewjs/site-resources/examples/pae-example.jvp
index e68a41a..605bb15 100644
Binary files a/utils/jalviewjs/site-resources/examples/pae-example.jvp and b/utils/jalviewjs/site-resources/examples/pae-example.jvp differ
diff --git a/utils/jalviewjs/site-resources/favicon.svg b/utils/jalviewjs/site-resources/favicon.svg
new file mode 100644
index 0000000..dbd550d
--- /dev/null
+++ b/utils/jalviewjs/site-resources/favicon.svg
@@ -0,0 +1 @@
+<svg enable-background="new 0 0 595.238 595.238" viewBox="0 0 85.33334 85.03162" xmlns="http://www.w3.org/2000/svg"><g fill="#009ddc"><path d="m41.359375 67.466797v2.310547c0 1.568934-.325813 2.114634-.511719 2.298828-.185905.184194-.571623.359375-1.560547.359375-.862493 0-1.166971-.177707-1.615234-.59375s-.951574-1.190805-1.537109-2.203125l-1.009766-1.746094-9.507812 5.597656.80664 1.660157c.09877.203242.208902.403299.31836.603515h4.863281c-.21436-.254657-.41854-.517168-.607422-.791015l2.865234-1.685547c.352225.507078.58997 1.033962 1.087891 1.496094.406826.377583.891961.711149 1.433594.980468h6.111328c.413731-.213955.809161-.482368 1.166015-.835937 1.228619-1.217309 1.697266-3.001506 1.697266-5.140625v-2.310547zm7.585937 0v2.416015c0 2.635185-.575569 4.505007-1.535156 5.871094h4.484375c.68566-1.710547 1.050781-3.681339 1.050781-5.871094v-2.416015z"/><path d="m68.458984 42.208984c-.490203 0-.971429.02425-1.443359.06641v4.011718c.463751-.04588.93958-.07813 1.443359-.07813 3.500777 0 5.759933.841497 7.654297 3.076172v-5.146484c-2.225726-1.310123-4.818118-1.929688-7.654297-1.929688zm-.01758 6.449219c-.490843 0-.967865.0662-1.425781.179688v4.230468c.206361-.265056.615372-.410156 1.425781-.410156.816133 0 1.258111.134932 1.6875.412109.429389.277179.910451.782248 1.460938 1.744141l1.03125 1.804688 3.492187-2.181641v-4.716797l-2.240234 1.400391c-.467283-.54922-.981605-1.029566-1.574219-1.41211-1.142805-.737702-2.493206-1.050781-3.857422-1.050781zm-1.425781 6.001953v4.738282c.52435.253032 1.074902.500955 1.6875.761718l.0059.002 1.900391.794922c2.306016.961155 4.142125 1.911384 5.503906 2.927735v-4.742188c-1.21089-.668863-2.531521-1.28031-3.96289-1.876953h-.002l-1.878907-.785156-.0078-.0039-.0039-.002c-1.572843-.670423-2.58412-1.220357-3-1.589843-.103505-.09196-.181792-.161288-.242187-.22461zm0 8.53711v4.269531h-.171873l.736328.308594c1.724336.741076 3.004962 1.337069 3.625 1.8125.622979.477685.677735.537575.677734 1.261718 0 .430479-.110521.670124-.572265 1.003907-.461745.333782-1.337477.652343-2.580078.652343-3.045292 0-4.345247-1.26882-5.785157-3.5625l-.925781-1.476562h-.333984l-9.277344 5.222656.886719 1.714844c.239082.462545.5116.910242.800781 1.349609h5.308594c-.535932-.497236-1.028114-1.024909-1.451172-1.595703l2.771484-1.558594c1.096768 1.311815 2.47402 2.448714 4.173829 3.154297h7.617187c.402982-.18443.784558-.402224 1.138672-.658203 1.331187-.962278 2.228517-2.550154 2.228515-4.246094 0-1.80647-.970575-3.459007-2.24414-4.435547-1.273565-.976539-2.757101-1.574492-4.498047-2.322265l-.0078-.0039-1.90625-.796875h-.002c-.07398-.03062-.135978-.06297-.208984-.09375z"/></g><g fill="#c1d82f"><path d="m51.703125 43.056641v7.746093h-2.757813v9.1875h4v-16.933593zm-10.34375 7.746093v9.1875h4v-9.1875z"/><path d="m60.621094 44.433594c-3.251584 2.120822-5.261719 5.56981-5.261719 9.544922 0 2.284696.508449 4.297101 1.408203 6.011718h3.853516v-1.285156c-.816822-1.213228-1.261719-2.657515-1.261719-4.726562 0-1.652803.430107-3.135593 1.261719-4.353516z"/></g><path d="m32.057495 32.052265h20.91173v20.911402h-20.91173z" fill="#0084a9"/><g stroke-width="6.118289" transform="matrix(.16344439 0 0 .16344439 -6.339681 -6.269563)"><path d="m38.788 38.359.035 324.03h64.364v-259.669h357.138l-64.37-64.361z" fill="#ad208e"/><path d="m202.144 201.678h357.136l-61.647-61.637h-357.152v222.272h61.663z" fill="#f78e1e"/><path d="m560.882 558.607-.034-324.033h-64.347v259.686l-358.64-.024 64.364 64.359z" fill="#009ddc"/><path d="m395.688 395.282h-356.784l61.631 61.647h356.794v-222.283h-61.641z" fill="#c1d82f"/></g><g stroke-width="11.239007" transform="matrix(.18019416 0 0 .17573708 7.013441 2.85734)"><path d="m243.8 381.4c0 43.6-25.6 63.5-62.9 63.5-33.7 0-53.2-17.4-63.2-38.5l34.3-20.7c6.6 11.7 12.6 21.6 27.1 21.6 13.8 0 22.6-5.4 22.6-26.5v-143.1h42.1z"/><path d="m343.4 444.9c-39.1 0-64.4-18.6-76.7-43l34.3-19.8c9 14.7 20.8 25.6 41.5 25.6 17.4 0 28.6-8.7 28.6-20.8 0-14.4-11.4-19.5-30.7-28l-10.5-4.5c-30.4-12.9-50.5-29.2-50.5-63.5 0-31.6 24.1-55.6 61.6-55.6 26.8 0 46 9.3 59.8 33.7l-32.8 21c-7.2-12.9-15-18-27.1-18-12.3 0-20.1 7.8-20.1 18 0 12.6 7.8 17.7 25.9 25.6l10.5 4.5c35.8 15.3 55.9 31 55.9 66.2 0 37.8-29.8 58.6-69.7 58.6z"/></g></svg>
\ No newline at end of file
diff --git a/utils/jalviewjs/site-resources/jalview_bin_Jalview-namespace.html b/utils/jalviewjs/site-resources/jalview_bin_Jalview-namespace.html
index 2a5ccc5..4563a71 100644
--- a/utils/jalviewjs/site-resources/jalview_bin_Jalview-namespace.html
+++ b/utils/jalviewjs/site-resources/jalview_bin_Jalview-namespace.html
@@ -1,6 +1,7 @@
 <!DOCTYPE html>
 <html>
 <head>
+<link rel="icon" type="image/svg+xml" href="/favicon.svg" />
 <title>SwingJS test Jalview</title><meta charset="utf-8" />
 <script src="swingjs/swingjs2.js"></script>
 <script>