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Created with Raphaël 2.2.08Jan23Oct9225Sep27Jan23Nov2212Sep20Apr28Jan9Nov727Oct26242226Aug1411Jun1022May2113627Jan234Nov323Oct4Sep19Aug1815149Jul25Jun15May986110Apr9874331Mar2827252421191413121119Feb18171312654331Jan302924222017141310613Dec105427Nov262120151275430Oct24231615141187123Sep2019181716131210964330Aug272221201916151413129631Jul3025241812111083227Jun26252421191817121130May287330Apr292624221918121095427Mar21201914127428Feb262522151413121187654131Jan3028242118171611103219Dec17111028Nov26Addition of CRAM file handling. Update of various jars. Addition of more unit tests.Initial BAM View changes to fix selection issues, zooming into secondary alignments, erroneous collapsing of reads with same start/end position and display of SNPs - related to RT ticket 597652Changes to new unit testsFirst commit of unit test changes. Added more manual unit tests, an EvoSuite regression set and coverage reporting. Moved Java version for Artemis to Java 8. Ripped out redundant Corba code.New unit tests added. Some todos still to be sorted outMerge pull request #230 from vaofford/artemis_v16.0.18update scratch108 to scratch118 - v16.0.18update urlsinc artemis versionv16.0.17v16.0.17Update AUTHORSMerge pull request #226 from aslett1/masterUpdated NCBI blast URL to httpsMerge pull request #225 from satta/masterbump copyright yearversion bumpMerge pull request #221 from satta/tcdb_newadd TCDB as databaseMerge pull request #220 from satta/java8-sortfix method name clash for List.sort() in Java 8Merge pull request #218 from afif-elghraoui/masterMerge pull request #219 from satta/fix_travisswitch to older EMBOSS versionoverride abstract method close() in CRAMReferenceSequenceFileMerge pull request #212 from satta/aliasMerge pull request #217 from aslett1/masterAdded Kim RutherfordMerge pull request #215 from sanger-pathogens/BT5_travisBuild using Ant under openjdk7BT5_travisBT5_travisMove dependencies to ${HOME}/dependenciesIt seemed unlikely that we support Java 8Add some more javas to test againstGive longer to upload the cacheDownload dependencies to the right placeReformat README to markdownAdd build status to READMECache dependencies, add install_dependencies scriptGet rid of lib4j complaints during buildAdd Emboss to TravisCIFix X11 issues with testsFail build on error as well as failure