sequenceserver 3.1.1 → 3.1.3
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- checksums.yaml +4 -4
- data/lib/sequenceserver/api_errors.rb +24 -0
- data/lib/sequenceserver/blast/tasks.rb +1 -1
- data/lib/sequenceserver/blast.rb +6 -0
- data/lib/sequenceserver/database.rb +13 -0
- data/lib/sequenceserver/routes.rb +1 -1
- data/lib/sequenceserver/sequence.rb +1 -2
- data/lib/sequenceserver/version.rb +1 -1
- data/lib/sequenceserver.rb +1 -1
- data/public/css/app.min.css +1 -1
- data/public/css/sequenceserver.css +0 -18
- data/public/css/sequenceserver.min.css +2 -2
- data/public/js/alignment_exporter.js +16 -28
- data/public/js/cloud_share_modal.js +42 -42
- data/public/js/form.js +12 -10
- data/public/js/grapher.js +4 -4
- data/public/js/hit.js +3 -3
- data/public/js/hits.js +276 -0
- data/public/js/jquery_world.js +1 -1
- data/public/js/mailto.js +1 -3
- data/public/js/null_plugins/report_plugins.js +1 -0
- data/public/js/options.js +2 -6
- data/public/js/query.js +1 -1
- data/public/js/report.js +68 -252
- data/public/js/report_root.js +7 -5
- data/public/js/search.js +28 -11
- data/public/js/sequence.js +158 -158
- data/public/js/sequence_modal.js +28 -36
- data/public/js/sidebar.js +7 -6
- data/public/js/tests/alignment_exporter.spec.js +38 -0
- data/public/js/tests/cloud_share_modal.spec.js +75 -0
- data/public/js/tests/report.spec.js +37 -15
- data/public/packages/jquery-ui@1.13.3.js +19070 -0
- data/public/sequenceserver-report.min.js +3 -2481
- data/public/sequenceserver-report.min.js.LICENSE.txt +300 -0
- data/public/sequenceserver-report.min.js.map +1 -0
- data/public/sequenceserver-search.min.js +3 -2382
- data/public/sequenceserver-search.min.js.LICENSE.txt +292 -0
- data/public/sequenceserver-search.min.js.map +1 -0
- data/views/layout.erb +3 -7
- data/views/search.erb +1 -1
- data/views/search_layout.erb +1 -1
- metadata +11 -5
- data/public/config.js +0 -147
- data/public/packages/jquery-ui@1.11.4.js +0 -16624
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* jQuery Browser Plugin v0.0.6
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* Released under the MIT license
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/*! jQuery UI - v1.13.3 - 2024-04-26
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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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/**
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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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* Copyright (c) 2002 Cynthia Brewer, Mark Harrower,
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* and The Pennsylvania State University.
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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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* 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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