From 227ee1c1c69c228b67d408a0a83ae51bf5811272 Mon Sep 17 00:00:00 2001 From: Charles Ofoegbu Date: Fri, 14 Nov 2014 14:43:56 +0000 Subject: [PATCH] House keeping --- examples/example_biojs.html | 67 +++------ resources/templates/BioJSTemplate.txt | 65 +++----- src/jalview/exceptions/JalviewException.java | 25 +++ .../exceptions/NoFileSelectedException.java | 10 ++ src/jalview/gui/AlignFrame.java | 1 - src/jalview/gui/AlignViewport.java | 12 +- src/jalview/gui/AnnotationExporter.java | 4 +- src/jalview/gui/FeatureRenderer.java | 42 +++--- src/jalview/gui/FeatureSettings.java | 6 +- src/jalview/gui/Jalview2XML.java | 8 +- src/jalview/gui/Jalview2XML_V1.java | 4 +- src/jalview/gui/SeqPanel.java | 50 ++++-- src/jalview/io/BioJsHTMLOutput.java | 159 ++++++++++++-------- src/jalview/io/HtmlFile.java | 5 +- src/jalview/io/IdentifyFile.java | 5 +- .../json/binding/v1/BioJsAlignmentPojo.java | 24 +++ test/jalview/io/BioJsHTMLOutputTest.java | 47 ++++++ test/jalview/io/HtmlFileTest.java | 16 ++ 18 files changed, 341 insertions(+), 209 deletions(-) create mode 100644 src/jalview/exceptions/JalviewException.java create mode 100644 src/jalview/exceptions/NoFileSelectedException.java create mode 100644 test/jalview/io/BioJsHTMLOutputTest.java create mode 100644 test/jalview/io/HtmlFileTest.java diff --git a/examples/example_biojs.html b/examples/example_biojs.html index 5b0d71e..b6f7bec 100644 --- a/examples/example_biojs.html +++ b/examples/example_biojs.html @@ -7,21 +7,21 @@ - Jalview Logo

- +

press "Run with JS"
- + @@ -31,8 +31,6 @@