viewingpdbs.html

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JAL-3210 Barebones gradle/buildship/eclipse. See README

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JAL-3224 JAL-3225 Fixed help image mangling, moved help to help/help and added this in to eclipse classpath generation

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JAL-2629 update spike branch to latest

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JAL-2944 revised docs and structure chooser screen shots

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JAL-2069 spike updated with latest (FeatureTypeSettings)

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JAL-2698 Cached PDB Entries -> Cached Structures in UI and help doc

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JAL-2738 copy to spikes/mungo

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JAL-2418 formatting

JAL-1476 JAL-2418 insufficient columns for superposition docs/release notes

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JAL-2089 patch broken merge to master for Release 2.10.0b1

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Merge branch 'releases/Release_2_10_0_Branch'

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JAL-2039 rejig instructions for Structure Chooser and clarify what happens after ‘View’ is pressed

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JAL-2089 Merge branch releases/Release_2_10_Branch to master

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JAL-2189 format help

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JAL-1957 JAL-1479 mention SIFTS mappings in PDB Structure viewing instructions

merge

JAL-2164 renamed 'DEFAULT_STRUCTURE_FORMAT' property to 'PDB_DOWNLOAD_FORMAT'

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JAL-2089 reworked and formatted doc for JAL-1666 PDB search interface and ‘3D structure…’ viewing option JAL-1919 mmcif

JAL-1919 JAL-1479 user help docs

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JAL-1925 update source version in license

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JAL-1894 update year/version in copyright

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JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensing glob

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JAL-1645 reformat help html - 2 spaces indents, no tabs

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JAL-1645 yet more documentation tweaks

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updated helpTOC to include recently added features, updated menus and outdated screenshots

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JAL-1544 'Jalview' consistently capitalised

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JAL-1667_1668 Updated documentation

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JAL-1668 updated documentation

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JAL-1683 replace year/version strings with tokens in source

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Merge: 497958b 68dcaa7 (fake synthesised by jbp)

Merge branch 'develop' into JAL-1483_29dev

Conflicts:

src/jalview/api/AlignmentViewPanel.java

src/jalview/appletgui/SeqPanel.java

src/jalview/gui/AlignFrame.java

src/jalview/gui/AlignViewport.java

src/jalview/gui/AnnotationExporter.java

src/jalview/gui/FeatureRenderer.java

src/jalview/gui/FeatureSettings.java

src/jalview/gui/Jalview2XML.java

src/jalview/gui/Jalview2XML_V1.java

src/jalview/gui/PopupMenu.java

src/jalview/gui/SeqPanel.java

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