sequenceserver 2.0.0 → 2.1.0

metadata

@@ -1,17 +1,15 @@
 --- !ruby/object:Gem::Specification
 name: sequenceserver
 version: !ruby/object:Gem::Version
-  version: 2.0.0
+  version: 2.1.0
 platform: ruby
 authors:
-- Anurag Priyam
-- Ben J Woodcroft
-- Vivek Rai
-- Yannick Wurm
-autorequire: 
+- Queen Mary University of London
+- Pragmatic Genomics Ltd
+autorequire:
 bindir: bin
 cert_chain: []
-date: 2022-01-10 00:00:00.000000000 Z
+date: 2023-07-28 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: json_pure
@@ -19,20 +17,20 @@ dependencies:
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: '1.8'
+        version: '2.6'
     - - ">="
       - !ruby/object:Gem::Version
-        version: 1.8.2
+        version: 2.6.3
   type: :runtime
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: '1.8'
+        version: '2.6'
     - - ">="
       - !ruby/object:Gem::Version
-        version: 1.8.2
+        version: 2.6.3
 - !ruby/object:Gem::Dependency
   name: ox
   requirement: !ruby/object:Gem::Requirement
@@ -54,45 +52,105 @@ dependencies:
       - !ruby/object:Gem::Version
         version: 2.1.1
 - !ruby/object:Gem::Dependency
-  name: sinatra
+  name: rest-client
   requirement: !ruby/object:Gem::Requirement
     requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '2.1'
     - - ">="
       - !ruby/object:Gem::Version
-        version: 2.0.0
+        version: 2.1.0
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: '2.0'
+        version: '2.1'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 2.1.0
+- !ruby/object:Gem::Dependency
+  name: rubyzip
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '2.3'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 2.3.2
   type: :runtime
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '2.3'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 2.3.2
+- !ruby/object:Gem::Dependency
+  name: sinatra
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '2.0'
     - - ">="
       - !ruby/object:Gem::Version
         version: 2.0.0
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
     - - "~>"
       - !ruby/object:Gem::Version
         version: '2.0'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 2.0.0
 - !ruby/object:Gem::Dependency
   name: slop
   requirement: !ruby/object:Gem::Requirement
     requirements:
-    - - ">="
-      - !ruby/object:Gem::Version
-        version: 3.6.0
     - - "~>"
       - !ruby/object:Gem::Version
         version: '3.6'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 3.6.0
   type: :runtime
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '3.6'
     - - ">="
       - !ruby/object:Gem::Version
         version: 3.6.0
+- !ruby/object:Gem::Dependency
+  name: webrick
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: '3.6'
+        version: '1.8'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 1.8.0
+  type: :runtime
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.8'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 1.8.0
 - !ruby/object:Gem::Dependency
   name: capybara
   requirement: !ruby/object:Gem::Requirement
@@ -134,111 +192,124 @@ dependencies:
       - !ruby/object:Gem::Version
         version: 1.0.23
 - !ruby/object:Gem::Dependency
-  name: rack-test
+  name: pry
   requirement: !ruby/object:Gem::Requirement
     requirements:
     - - ">="
       - !ruby/object:Gem::Version
-        version: 1.0.0
-    - - "~>"
-      - !ruby/object:Gem::Version
-        version: '1.0'
+        version: '0'
   type: :development
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: '0'
+- !ruby/object:Gem::Dependency
+  name: rack-test
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.0'
     - - ">="
       - !ruby/object:Gem::Version
         version: 1.0.0
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
     - - "~>"
       - !ruby/object:Gem::Version
         version: '1.0'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 1.0.0
 - !ruby/object:Gem::Dependency
   name: rspec
   requirement: !ruby/object:Gem::Requirement
     requirements:
-    - - ">="
-      - !ruby/object:Gem::Version
-        version: 3.7.0
     - - "~>"
       - !ruby/object:Gem::Version
         version: '3.7'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 3.7.0
   type: :development
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
-    - - ">="
-      - !ruby/object:Gem::Version
-        version: 3.7.0
     - - "~>"
       - !ruby/object:Gem::Version
         version: '3.7'
+    - - ">="
+      - !ruby/object:Gem::Version
+        version: 3.7.0
 - !ruby/object:Gem::Dependency
   name: rubocop
   requirement: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: '0.75'
+        version: '1.50'
     - - ">="
       - !ruby/object:Gem::Version
-        version: 0.75.1
+        version: 1.50.1
   type: :development
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: '0.75'
+        version: '1.50'
     - - ">="
       - !ruby/object:Gem::Version
-        version: 0.75.1
+        version: 1.50.1
 - !ruby/object:Gem::Dependency
   name: selenium-webdriver
   requirement: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: '3.142'
+        version: 4.10.0
     - - ">="
       - !ruby/object:Gem::Version
-        version: 3.142.3
+        version: 4.10.0
   type: :development
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: '3.142'
+        version: 4.10.0
     - - ">="
       - !ruby/object:Gem::Version
-        version: 3.142.3
+        version: 4.10.0
 - !ruby/object:Gem::Dependency
   name: simplecov
   requirement: !ruby/object:Gem::Requirement
     requirements:
-    - - ">="
+    - - "~>"
       - !ruby/object:Gem::Version
         version: 0.17.0
-    - - "~>"
+    - - ">="
       - !ruby/object:Gem::Version
         version: 0.17.0
   type: :development
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
-    - - ">="
+    - - "~>"
       - !ruby/object:Gem::Version
         version: 0.17.0
-    - - "~>"
+    - - ">="
       - !ruby/object:Gem::Version
         version: 0.17.0
 description: |
   SequenceServer lets you rapidly set up a BLAST+ server with an intuitive
   user interface for use locally or over the web.
 email:
-- anurag08priyam@gmail.com
-- b.woodcroft@uq.edu.au
+- contact@sequenceserver.com
 executables:
 - sequenceserver
 extensions: []
@@ -267,12 +338,14 @@ files:
 - lib/sequenceserver/logger.rb
 - lib/sequenceserver/makeblastdb.rb
 - lib/sequenceserver/pool.rb
+- lib/sequenceserver/refinements.rb
 - lib/sequenceserver/report.rb
 - lib/sequenceserver/routes.rb
 - lib/sequenceserver/sequence.rb
 - lib/sequenceserver/server.rb
 - lib/sequenceserver/sys.rb
 - lib/sequenceserver/version.rb
+- lib/sequenceserver/zip_file_generator.rb
 - public/SequenceServer_logo.png
 - public/config.js
 - public/css/fonts.css
@@ -297,10 +370,14 @@ files:
 - public/fonts/fontawesome-webfont.woff2
 - public/js/alignment_exporter.js
 - public/js/circos.js
+- public/js/cloud_share_modal.js
+- public/js/databases.js
 - public/js/databases_tree.js
+- public/js/dnd.js
 - public/js/download_fasta.js
 - public/js/error_modal.js
 - public/js/exporter.js
+- public/js/form.js
 - public/js/grapher.js
 - public/js/hit.js
 - public/js/hits_overview.js
@@ -309,15 +386,29 @@ files:
 - public/js/kablammo.js
 - public/js/kablammo/alignment_viewer.js
 - public/js/length_distribution.js
+- public/js/mailto.js
+- public/js/options.js
 - public/js/query.js
 - public/js/report.js
+- public/js/report_root.js
 - public/js/search.js
+- public/js/search_button.js
 - public/js/sequence.js
 - public/js/sequence_modal.js
+- public/js/share_url.js
 - public/js/sidebar.js
 - public/js/svgExporter.js
+- public/js/tests/database.spec.js
+- public/js/tests/mock_data/databases.json
+- public/js/tests/mock_data/long_response.json
+- public/js/tests/mock_data/short_response.json
+- public/js/tests/report.spec.js
+- public/js/tests/search_button.spec.js
+- public/js/tests/search_query.spec.js
 - public/js/utils.js
 - public/js/visualisation_helpers.js
+- public/packages/circosJS@1.7.0.js
+- public/packages/jquery-ui@1.11.4.js
 - public/sequenceserver-report.min.js
 - public/sequenceserver-search.min.js
 - public/vendor/github/components/jquery@2.1.4.js
@@ -1041,29 +1132,33 @@ files:
 - public/vendor/github/components/jqueryui@1.11.4/ui/tabs.js
 - public/vendor/github/components/jqueryui@1.11.4/ui/tooltip.js
 - public/vendor/github/components/jqueryui@1.11.4/ui/widget.js
-- public/vendor/github/jspm/nodelibs-buffer@0.1.0.js
-- public/vendor/github/jspm/nodelibs-buffer@0.1.0/index.js
-- public/vendor/github/jspm/nodelibs-buffer@0.1.0/package.json
+- public/vendor/github/jspm/nodelibs-assert@0.1.0.js
+- public/vendor/github/jspm/nodelibs-assert@0.1.0/index.js
+- public/vendor/github/jspm/nodelibs-assert@0.1.0/package.json
+- public/vendor/github/jspm/nodelibs-buffer@0.1.1.js
+- public/vendor/github/jspm/nodelibs-buffer@0.1.1/index.js
+- public/vendor/github/jspm/nodelibs-buffer@0.1.1/package.json
 - public/vendor/github/jspm/nodelibs-events@0.1.1.js
 - public/vendor/github/jspm/nodelibs-events@0.1.1/index.js
 - public/vendor/github/jspm/nodelibs-events@0.1.1/package.json
 - public/vendor/github/jspm/nodelibs-fs@0.1.2.js
 - public/vendor/github/jspm/nodelibs-fs@0.1.2/index.js
 - public/vendor/github/jspm/nodelibs-fs@0.1.2/package.json
-- public/vendor/github/jspm/nodelibs-module@0.1.0.js
-- public/vendor/github/jspm/nodelibs-module@0.1.0/index.js
 - public/vendor/github/jspm/nodelibs-path@0.1.0.js
 - public/vendor/github/jspm/nodelibs-path@0.1.0/index.js
 - public/vendor/github/jspm/nodelibs-path@0.1.0/package.json
-- public/vendor/github/jspm/nodelibs-process@0.1.1.js
-- public/vendor/github/jspm/nodelibs-process@0.1.1/index.js
-- public/vendor/github/jspm/nodelibs-process@0.1.1/package.json
+- public/vendor/github/jspm/nodelibs-process@0.1.2.js
+- public/vendor/github/jspm/nodelibs-process@0.1.2/index.js
+- public/vendor/github/jspm/nodelibs-process@0.1.2/package.json
 - public/vendor/github/jspm/nodelibs-stream@0.1.0.js
 - public/vendor/github/jspm/nodelibs-stream@0.1.0/index.js
 - public/vendor/github/jspm/nodelibs-stream@0.1.0/package.json
 - public/vendor/github/jspm/nodelibs-util@0.1.0.js
 - public/vendor/github/jspm/nodelibs-util@0.1.0/index.js
 - public/vendor/github/jspm/nodelibs-util@0.1.0/package.json
+- public/vendor/github/jspm/nodelibs-vm@0.1.0.js
+- public/vendor/github/jspm/nodelibs-vm@0.1.0/index.js
+- public/vendor/github/jspm/nodelibs-vm@0.1.0/package.json
 - public/vendor/github/mbostock/d3@3.5.6.js
 - public/vendor/github/mbostock/d3@3.5.6/d3.js
 - public/vendor/github/nicgirault/circosJs@1.7.0.js
@@ -1212,12 +1307,13 @@ files:
 - public/vendor/github/vakata/jstree@3.3.8/test/visual/screenshots/desktop/home.png
 - public/vendor/github/vakata/jstree@3.3.8/test/visual/screenshots/mobile/home.png
 - public/vendor/github/vakata/jstree@3.3.8/test/visual/screenshots/mobile/mobile.png
-- public/vendor/npm/amdefine@1.0.0.js
-- public/vendor/npm/amdefine@1.0.0/LICENSE
-- public/vendor/npm/amdefine@1.0.0/README.md
-- public/vendor/npm/amdefine@1.0.0/amdefine.js
-- public/vendor/npm/amdefine@1.0.0/intercept.js
-- public/vendor/npm/amdefine@1.0.0/package.json
+- public/vendor/npm/assert@1.5.0.js
+- public/vendor/npm/assert@1.5.0/CHANGELOG.md
+- public/vendor/npm/assert@1.5.0/LICENSE
+- public/vendor/npm/assert@1.5.0/README.md
+- public/vendor/npm/assert@1.5.0/assert.js
+- public/vendor/npm/assert@1.5.0/package.json
+- public/vendor/npm/assert@1.5.0/test.js
 - public/vendor/npm/babel-core@5.8.23.js
 - public/vendor/npm/babel-core@5.8.23/browser-polyfill.js
 - public/vendor/npm/babel-core@5.8.23/browser-polyfill.min.js
@@ -1596,46 +1692,20 @@ files:
 - public/vendor/npm/babel-runtime@5.8.20/regenerator.js
 - public/vendor/npm/babel-runtime@5.8.20/regenerator/index.js
 - public/vendor/npm/babel-runtime@5.8.20/regenerator/runtime.js
-- public/vendor/npm/base62@0.1.1.js
-- public/vendor/npm/base62@0.1.1/LICENSE
-- public/vendor/npm/base62@0.1.1/Readme.md
-- public/vendor/npm/base62@0.1.1/base62.js
-- public/vendor/npm/base62@0.1.1/package.json
-- public/vendor/npm/base62@0.1.1/test/test.js
-- public/vendor/npm/base64-js@0.0.8.js
-- public/vendor/npm/base64-js@0.0.8/LICENSE.MIT
-- public/vendor/npm/base64-js@0.0.8/README.md
-- public/vendor/npm/base64-js@0.0.8/lib/b64.js
-- public/vendor/npm/base64-js@0.0.8/package.json
-- public/vendor/npm/base64-js@0.0.8/test/convert.js
-- public/vendor/npm/base64-js@0.0.8/test/url-safe.js
-- public/vendor/npm/buffer@3.4.3.js
-- public/vendor/npm/buffer@3.4.3/LICENSE
-- public/vendor/npm/buffer@3.4.3/README.md
-- public/vendor/npm/buffer@3.4.3/index.js
-- public/vendor/npm/buffer@3.4.3/package.json
-- public/vendor/npm/buffer@3.4.3/test/_polyfill.js
-- public/vendor/npm/buffer@3.4.3/test/base64.js
-- public/vendor/npm/buffer@3.4.3/test/basic.js
-- public/vendor/npm/buffer@3.4.3/test/compare.js
-- public/vendor/npm/buffer@3.4.3/test/constructor.js
-- public/vendor/npm/buffer@3.4.3/test/deprecated.js
-- public/vendor/npm/buffer@3.4.3/test/from-string.js
-- public/vendor/npm/buffer@3.4.3/test/methods.js
-- public/vendor/npm/buffer@3.4.3/test/node-es6/README.txt
-- public/vendor/npm/buffer@3.4.3/test/node-es6/test-buffer-arraybuffer.js
-- public/vendor/npm/buffer@3.4.3/test/node-es6/test-buffer-iterator.js
-- public/vendor/npm/buffer@3.4.3/test/node/README.txt
-- public/vendor/npm/buffer@3.4.3/test/node/test-buffer-ascii.js
-- public/vendor/npm/buffer@3.4.3/test/node/test-buffer-bytelength.js
-- public/vendor/npm/buffer@3.4.3/test/node/test-buffer-concat.js
-- public/vendor/npm/buffer@3.4.3/test/node/test-buffer-indexof.js
-- public/vendor/npm/buffer@3.4.3/test/node/test-buffer-inspect.js
-- public/vendor/npm/buffer@3.4.3/test/node/test-buffer.js
-- public/vendor/npm/buffer@3.4.3/test/slice.js
-- public/vendor/npm/buffer@3.4.3/test/static.js
-- public/vendor/npm/buffer@3.4.3/test/to-string.js
-- public/vendor/npm/buffer@3.4.3/test/write.js
+- public/vendor/npm/base64-js@1.5.1.js
+- public/vendor/npm/base64-js@1.5.1/LICENSE
+- public/vendor/npm/base64-js@1.5.1/README.md
+- public/vendor/npm/base64-js@1.5.1/base64js.min.js
+- public/vendor/npm/base64-js@1.5.1/index.d.ts
+- public/vendor/npm/base64-js@1.5.1/index.js
+- public/vendor/npm/base64-js@1.5.1/package.json
+- public/vendor/npm/buffer@5.7.1.js
+- public/vendor/npm/buffer@5.7.1/AUTHORS.md
+- public/vendor/npm/buffer@5.7.1/LICENSE
+- public/vendor/npm/buffer@5.7.1/README.md
+- public/vendor/npm/buffer@5.7.1/index.d.ts
+- public/vendor/npm/buffer@5.7.1/index.js
+- public/vendor/npm/buffer@5.7.1/package.json
 - public/vendor/npm/core-js@1.1.2.js
 - public/vendor/npm/core-js@1.1.2/Gruntfile.js
 - public/vendor/npm/core-js@1.1.2/LICENSE
@@ -2487,29 +2557,11 @@ files:
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 - public/vendor/npm/core-js@1.1.2/web/index.js
 - public/vendor/npm/core-js@1.1.2/web/timers.js
-- public/vendor/npm/core-util-is@1.0.1.js
-- public/vendor/npm/core-util-is@1.0.1/README.md
-- public/vendor/npm/core-util-is@1.0.1/float.patch
-- public/vendor/npm/core-util-is@1.0.1/lib/util.js
-- public/vendor/npm/core-util-is@1.0.1/package.json
-- public/vendor/npm/core-util-is@1.0.1/util.js
-- public/vendor/npm/envify@3.4.0.js
-- public/vendor/npm/envify@3.4.0/README.md
-- public/vendor/npm/envify@3.4.0/bin/envify
-- public/vendor/npm/envify@3.4.0/custom.js
-- public/vendor/npm/envify@3.4.0/index.js
-- public/vendor/npm/envify@3.4.0/package.json
-- public/vendor/npm/envify@3.4.0/visitors.js
-- public/vendor/npm/esprima-fb@13001.1001.0-dev-harmony-fb.js
-- public/vendor/npm/esprima-fb@13001.1001.0-dev-harmony-fb/bin/esparse.js
-- public/vendor/npm/esprima-fb@13001.1001.0-dev-harmony-fb/bin/esvalidate.js
-- public/vendor/npm/esprima-fb@13001.1001.0-dev-harmony-fb/esprima.js
-- public/vendor/npm/esprima-fb@13001.1001.0-dev-harmony-fb/package.json
-- public/vendor/npm/esprima-fb@13001.1001.0-dev-harmony-fb/test/compat.js
-- public/vendor/npm/esprima-fb@13001.1001.0-dev-harmony-fb/test/reflect.js
-- public/vendor/npm/esprima-fb@13001.1001.0-dev-harmony-fb/test/run.js
-- public/vendor/npm/esprima-fb@13001.1001.0-dev-harmony-fb/test/runner.js
-- public/vendor/npm/esprima-fb@13001.1001.0-dev-harmony-fb/test/test.js
+- public/vendor/npm/core-util-is@1.0.3.js
+- public/vendor/npm/core-util-is@1.0.3/LICENSE
+- public/vendor/npm/core-util-is@1.0.3/README.md
+- public/vendor/npm/core-util-is@1.0.3/lib/util.js
+- public/vendor/npm/core-util-is@1.0.3/package.json
 - public/vendor/npm/events@1.0.2.js
 - public/vendor/npm/events@1.0.2/History.md
 - public/vendor/npm/events@1.0.2/LICENSE
@@ -2571,323 +2623,145 @@ files:
 - public/vendor/npm/font-awesome@4.4.0/scss/_stacked.scss
 - public/vendor/npm/font-awesome@4.4.0/scss/_variables.scss
 - public/vendor/npm/font-awesome@4.4.0/scss/font-awesome.scss
-- public/vendor/npm/ieee754@1.1.6.js
-- public/vendor/npm/ieee754@1.1.6/LICENSE
-- public/vendor/npm/ieee754@1.1.6/README.md
-- public/vendor/npm/ieee754@1.1.6/index.js
-- public/vendor/npm/ieee754@1.1.6/package.json
-- public/vendor/npm/ieee754@1.1.6/test/basic.js
+- public/vendor/npm/ieee754@1.2.1.js
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-- public/vendor/npm/react@0.13.3/lib/onlyChild.js
-- public/vendor/npm/react@0.13.3/lib/performance.js
-- public/vendor/npm/react@0.13.3/lib/performanceNow.js
-- public/vendor/npm/react@0.13.3/lib/quoteAttributeValueForBrowser.js
-- public/vendor/npm/react@0.13.3/lib/setInnerHTML.js
-- public/vendor/npm/react@0.13.3/lib/setTextContent.js
-- public/vendor/npm/react@0.13.3/lib/shallowEqual.js
-- public/vendor/npm/react@0.13.3/lib/shouldUpdateReactComponent.js
-- public/vendor/npm/react@0.13.3/lib/toArray.js
-- public/vendor/npm/react@0.13.3/lib/traverseAllChildren.js
-- public/vendor/npm/react@0.13.3/lib/update.js
-- public/vendor/npm/react@0.13.3/lib/warning.js
-- public/vendor/npm/react@0.13.3/package.json
-- public/vendor/npm/react@0.13.3/react.js
-- public/vendor/npm/readable-stream@1.1.13.js
-- public/vendor/npm/readable-stream@1.1.13/LICENSE
-- public/vendor/npm/readable-stream@1.1.13/README.md
-- public/vendor/npm/readable-stream@1.1.13/duplex.js
-- public/vendor/npm/readable-stream@1.1.13/float.patch
-- public/vendor/npm/readable-stream@1.1.13/lib/_stream_duplex.js
-- public/vendor/npm/readable-stream@1.1.13/lib/_stream_passthrough.js
-- public/vendor/npm/readable-stream@1.1.13/lib/_stream_readable.js
-- public/vendor/npm/readable-stream@1.1.13/lib/_stream_transform.js
-- public/vendor/npm/readable-stream@1.1.13/lib/_stream_writable.js
-- public/vendor/npm/readable-stream@1.1.13/package.json
-- public/vendor/npm/readable-stream@1.1.13/passthrough.js
-- public/vendor/npm/readable-stream@1.1.13/readable.js
-- public/vendor/npm/readable-stream@1.1.13/transform.js
-- public/vendor/npm/readable-stream@1.1.13/writable.js
-- public/vendor/npm/source-map@0.1.31.js
-- public/vendor/npm/source-map@0.1.31/CHANGELOG.md
-- public/vendor/npm/source-map@0.1.31/LICENSE
-- public/vendor/npm/source-map@0.1.31/Makefile.dryice.js
-- public/vendor/npm/source-map@0.1.31/README.md
-- public/vendor/npm/source-map@0.1.31/build/assert-shim.js
-- public/vendor/npm/source-map@0.1.31/build/mini-require.js
-- public/vendor/npm/source-map@0.1.31/build/prefix-source-map.jsm
-- public/vendor/npm/source-map@0.1.31/build/prefix-utils.jsm
-- public/vendor/npm/source-map@0.1.31/build/suffix-browser.js
-- public/vendor/npm/source-map@0.1.31/build/suffix-source-map.jsm
-- public/vendor/npm/source-map@0.1.31/build/suffix-utils.jsm
-- public/vendor/npm/source-map@0.1.31/build/test-prefix.js
-- public/vendor/npm/source-map@0.1.31/build/test-suffix.js
-- public/vendor/npm/source-map@0.1.31/lib/source-map.js
-- public/vendor/npm/source-map@0.1.31/lib/source-map/array-set.js
-- public/vendor/npm/source-map@0.1.31/lib/source-map/base64-vlq.js
-- public/vendor/npm/source-map@0.1.31/lib/source-map/base64.js
-- public/vendor/npm/source-map@0.1.31/lib/source-map/binary-search.js
-- public/vendor/npm/source-map@0.1.31/lib/source-map/source-map-consumer.js
-- public/vendor/npm/source-map@0.1.31/lib/source-map/source-map-generator.js
-- public/vendor/npm/source-map@0.1.31/lib/source-map/source-node.js
-- public/vendor/npm/source-map@0.1.31/lib/source-map/util.js
-- public/vendor/npm/source-map@0.1.31/package.json
-- public/vendor/npm/source-map@0.1.31/test/run-tests.js
-- public/vendor/npm/source-map@0.1.31/test/source-map/test-api.js
-- public/vendor/npm/source-map@0.1.31/test/source-map/test-array-set.js
-- public/vendor/npm/source-map@0.1.31/test/source-map/test-base64-vlq.js
-- public/vendor/npm/source-map@0.1.31/test/source-map/test-base64.js
-- public/vendor/npm/source-map@0.1.31/test/source-map/test-binary-search.js
-- public/vendor/npm/source-map@0.1.31/test/source-map/test-dog-fooding.js
-- public/vendor/npm/source-map@0.1.31/test/source-map/test-source-map-consumer.js
-- public/vendor/npm/source-map@0.1.31/test/source-map/test-source-map-generator.js
-- public/vendor/npm/source-map@0.1.31/test/source-map/test-source-node.js
-- public/vendor/npm/source-map@0.1.31/test/source-map/util.js
+- public/vendor/npm/react@18.0.0.js
+- public/vendor/npm/react@18.0.0/LICENSE
+- public/vendor/npm/react@18.0.0/README.md
+- public/vendor/npm/react@18.0.0/cjs/react-jsx-dev-runtime.development.js
+- public/vendor/npm/react@18.0.0/cjs/react-jsx-dev-runtime.production.min.js
+- public/vendor/npm/react@18.0.0/cjs/react-jsx-dev-runtime.profiling.min.js
+- public/vendor/npm/react@18.0.0/cjs/react-jsx-runtime.development.js
+- public/vendor/npm/react@18.0.0/cjs/react-jsx-runtime.production.min.js
+- public/vendor/npm/react@18.0.0/cjs/react-jsx-runtime.profiling.min.js
+- public/vendor/npm/react@18.0.0/cjs/react.development.js
+- public/vendor/npm/react@18.0.0/cjs/react.production.min.js
+- public/vendor/npm/react@18.0.0/cjs/react.shared-subset.development.js
+- public/vendor/npm/react@18.0.0/cjs/react.shared-subset.production.min.js
+- public/vendor/npm/react@18.0.0/index.js
+- public/vendor/npm/react@18.0.0/jsx-dev-runtime.js
+- public/vendor/npm/react@18.0.0/jsx-runtime.js
+- public/vendor/npm/react@18.0.0/package.json
+- public/vendor/npm/react@18.0.0/react.shared-subset.js
+- public/vendor/npm/react@18.0.0/umd/react.development.js
+- public/vendor/npm/react@18.0.0/umd/react.production.min.js
+- public/vendor/npm/react@18.0.0/umd/react.profiling.min.js
+- public/vendor/npm/readable-stream@1.1.14.js
+- public/vendor/npm/readable-stream@1.1.14/LICENSE
+- public/vendor/npm/readable-stream@1.1.14/README.md
+- public/vendor/npm/readable-stream@1.1.14/duplex.js
+- public/vendor/npm/readable-stream@1.1.14/float.patch
+- public/vendor/npm/readable-stream@1.1.14/lib/_stream_duplex.js
+- public/vendor/npm/readable-stream@1.1.14/lib/_stream_passthrough.js
+- public/vendor/npm/readable-stream@1.1.14/lib/_stream_readable.js
+- public/vendor/npm/readable-stream@1.1.14/lib/_stream_transform.js
+- public/vendor/npm/readable-stream@1.1.14/lib/_stream_writable.js
+- public/vendor/npm/readable-stream@1.1.14/package.json
+- public/vendor/npm/readable-stream@1.1.14/passthrough.js
+- public/vendor/npm/readable-stream@1.1.14/readable.js
+- public/vendor/npm/readable-stream@1.1.14/transform.js
+- public/vendor/npm/readable-stream@1.1.14/writable.js
+- public/vendor/npm/scheduler@0.21.0.js
+- public/vendor/npm/scheduler@0.21.0/LICENSE
+- public/vendor/npm/scheduler@0.21.0/README.md
+- public/vendor/npm/scheduler@0.21.0/cjs/scheduler-unstable_mock.development.js
+- public/vendor/npm/scheduler@0.21.0/cjs/scheduler-unstable_mock.production.min.js
+- public/vendor/npm/scheduler@0.21.0/cjs/scheduler-unstable_post_task.development.js
+- public/vendor/npm/scheduler@0.21.0/cjs/scheduler-unstable_post_task.production.min.js
+- public/vendor/npm/scheduler@0.21.0/cjs/scheduler.development.js
+- public/vendor/npm/scheduler@0.21.0/cjs/scheduler.production.min.js
+- public/vendor/npm/scheduler@0.21.0/index.js
+- public/vendor/npm/scheduler@0.21.0/package.json
+- public/vendor/npm/scheduler@0.21.0/umd/scheduler-unstable_mock.development.js
+- public/vendor/npm/scheduler@0.21.0/umd/scheduler-unstable_mock.production.min.js
+- public/vendor/npm/scheduler@0.21.0/umd/scheduler.development.js
+- public/vendor/npm/scheduler@0.21.0/umd/scheduler.production.min.js
+- public/vendor/npm/scheduler@0.21.0/umd/scheduler.profiling.min.js
+- public/vendor/npm/scheduler@0.21.0/unstable_mock.js
+- public/vendor/npm/scheduler@0.21.0/unstable_post_task.js
 - public/vendor/npm/stream-browserify@1.0.0.js
 - public/vendor/npm/stream-browserify@1.0.0/LICENSE
 - public/vendor/npm/stream-browserify@1.0.0/index.js
@@ -2899,18 +2773,6 @@ files:
 - public/vendor/npm/string_decoder@0.10.31/README.md
 - public/vendor/npm/string_decoder@0.10.31/index.js
 - public/vendor/npm/string_decoder@0.10.31/package.json
-- public/vendor/npm/through@2.3.8.js
-- public/vendor/npm/through@2.3.8/LICENSE.APACHE2
-- public/vendor/npm/through@2.3.8/LICENSE.MIT
-- public/vendor/npm/through@2.3.8/index.js
-- public/vendor/npm/through@2.3.8/package.json
-- public/vendor/npm/through@2.3.8/readme.markdown
-- public/vendor/npm/through@2.3.8/test.js
-- public/vendor/npm/through@2.3.8/test/async.js
-- public/vendor/npm/through@2.3.8/test/auto-destroy.js
-- public/vendor/npm/through@2.3.8/test/buffering.js
-- public/vendor/npm/through@2.3.8/test/end.js
-- public/vendor/npm/through@2.3.8/test/index.js
 - public/vendor/npm/underscore@1.8.3.js
 - public/vendor/npm/underscore@1.8.3/LICENSE
 - public/vendor/npm/underscore@1.8.3/package.json
@@ -2931,6 +2793,16 @@ files:
 - public/vendor/npm/util@0.10.3/test/node/log.js
 - public/vendor/npm/util@0.10.3/test/node/util.js
 - public/vendor/npm/util@0.10.3/util.js
+- public/vendor/npm/vm-browserify@0.0.4.js
+- public/vendor/npm/vm-browserify@0.0.4/LICENSE
+- public/vendor/npm/vm-browserify@0.0.4/example/run/bundle.js
+- public/vendor/npm/vm-browserify@0.0.4/example/run/entry.js
+- public/vendor/npm/vm-browserify@0.0.4/example/run/index.html
+- public/vendor/npm/vm-browserify@0.0.4/example/run/server.js
+- public/vendor/npm/vm-browserify@0.0.4/index.js
+- public/vendor/npm/vm-browserify@0.0.4/package.json
+- public/vendor/npm/vm-browserify@0.0.4/readme.markdown
+- public/vendor/npm/vm-browserify@0.0.4/test/vm.js
 - public/vendor/npm/webshim@1.15.8.js
 - public/vendor/npm/webshim@1.15.8/Gruntfile.js
 - public/vendor/npm/webshim@1.15.8/MIT-LICENSE.txt
@@ -3606,11 +3478,16 @@ files:
 - public/vendor/system.js
 - public/vendor/system.js.map
 - public/vendor/system.src.js
-- views/_options.erb
+- views/blastn_options.erb
+- views/blastp_options.erb
+- views/blastx_options.erb
+- views/error.erb
 - views/layout.erb
 - views/report.erb
 - views/search.erb
-homepage: http://sequenceserver.com
+- views/tblastn_options.erb
+- views/tblastx_options.erb
+homepage: https://sequenceserver.com
 licenses:
 - AGPL-3.0
 metadata: {}
@@ -3618,13 +3495,14 @@ post_install_message: |2+
 
   ------------------------------------------------------------------------
     Thank you for installing SequenceServer :)
-
     To launch SequenceServer execute 'sequenceserver' from command line.
 
       $ sequenceserver
 
-
-    Visit http://sequenceserver.com for more.
+    More information at https://sequenceserver.com
+    Community support: https://support.sequenceserver.com
+    For point-and-click setup, and to avoid the hassle of running your own
+    servers, check SequenceServer Cloud: https://sequenceserver.com/cloud
   ------------------------------------------------------------------------
 
 rdoc_options: []
@@ -3634,15 +3512,16 @@ required_ruby_version: !ruby/object:Gem::Requirement
   requirements:
   - - ">="
     - !ruby/object:Gem::Version
-      version: 2.3.0
+      version: 3.0.6
 required_rubygems_version: !ruby/object:Gem::Requirement
   requirements:
   - - ">="
     - !ruby/object:Gem::Version
       version: '0'
 requirements: []
-rubygems_version: 3.0.3.1
-signing_key: 
+rubygems_version: 3.4.13
+signing_key:
 specification_version: 4
 summary: BLAST search made easy!
 test_files: []
+...