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Created with Raphaël 2.2.020Mar1917161514131210987632128Feb272421171615141310987653231Jan302928272625242322201918171614111097654226Dec242322212018171615141312109876542130Nov29282726252423222120191817Adding flagstats as tsvFixing BIOPET-606Fixing relative pathsRemoved unused importFormat fixRemove legency codeAdding more output files to gearssingleFixed rna templateMerge remote-tracking branch 'remotes/origin/develop' into fix-BIOPET-587Fixing mapping front templateMerge pull request #36 from biopet/fix-BIOPET-610Added classes for pim implementationno need to copy the template from classpath to a file, TemplateEngine is able to access the files also from there, and it's able also to find precompiled template classes when it's given the path to the ssp templatecompiling ssp-template files with scalateSplit read and write methods to another class, multi threaded reading enabled for reportMore limitation on threadsFixing small bugFix formatSwitch order of blocksFixing BIOPET-614Fixing BIOPET-542 and BIOPET-615Fixing BIOPET-612Fixing BIOPET-611Fixing BIOPET-577Added files to reportAdded first version of files to reportFormat fixFormat fixAdded importFix sorting of samplesFixed templateMerge remote-tracking branch 'origin/fix-BIOPET-587' into fix-BIOPET-587Disable files pages for nowFormat fixAdding back checksum jobsMerge pull request #31 from biopet/fix-BIOPET-587Format fixesFixing name in summary runFixing summary valuesFixing templates