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Created with Raphaël 2.2.08Jan713Dec1110528Nov2726232119161312629Oct161511984324Sep11Jun729May3Apr29Mar28272623212096213Feb12965231Jan292625823Oct9225Sep27Jan23Nov2212Sep20Apr28Jan9Nov727Oct26242226Aug1411Jun1022May2113627Jan234Nov323Oct4Sep19Aug1815149Jul25Jun15May986110Apr9874331Mar2827252421191413121119Feb18171312654331Jan302924222017141310613Dec105427Nov262120151275430Oct24231615141187123Sep2019181716131210964330Aug272221201916151413129631Jul3025241812111083227Jun262524211918Changed download links to point at v18.0.0 Github release artifacts. Removed note about Safari downloads.Merge pull request #270 from sanger-pathogens/build-process-upgrade-mergev18.0.0v18.0.0Merge pull request #269 from kpepper/build-process-upgrade-mergebuild-process-u…build-process-upgrade-mergeSmall performance improvement for some for-loopsUpgraded symlink resolution code, for Bioconda recipeUpdated release information and copyright datesUpdated unit test constantv18.0.0-RC1v18.0.0-RC1Updated Jacoco and Javadoc plugin versionsUpdated wording around pre-built releasesUpdated top level README with Java version infoRelease 18 documentation updatesRT Ticket 472601 - RPKM and read countsStandardise app icon behaviour across platformsRun InterPro search in a different thread to avoid event dispatcher blockingAdded additional file extension for drag/dropAdded exception catch for WindowsChanged some textChanged to use HTTP constantsRemoved a BamView mac optionFixed missing menu options for MacMade some variables privateRemoved unused importsAdded the ability to invoke an EBI InterPro sequence searchRemoved fasta36/fastx/Jalview/smart run ability, as these programs will no longer be supportedUpdated code references to Java 8Added recent changesAdded additional classUpdated for Java 9+Removed ability to run remote blast searches etc over SSH. This code is very old and will be iteratively retiredUpdated etc/run_ scripts to use later program versions, e.g. fasta36 and blast+. Removed the .sanger and .linux run scripts as these obviously have not been used for some time and were very out of datePorted local blast db setup script from Sanger general repoBuild process updates, mostly for MacFix for RT ticket #642944. ACT can now handle NCBI Blast web site comparison files. This is a workaround for the fact that DoubleACT and WebACT are currently downRemoved deprecated call and unused importsFlattened the lib directory structureChanges to get Pfam hyperlinks and Pfam/Rfam sequence searching working (also see RT Ticket 420623)Added mod for RT ticket #642350 - new evidence codesAdded fix for Mac Java 9 JDK-8181568 issueFixed compiler warningsFixed incorrect error messages displayed when no feature has been selected for a pfam/rfam search