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Created with Raphaël 2.2.09Feb6543230Jan292827262322212019161514131210986517Dec1611985432128Nov272524222120191817141211108765432131Oct302928Added deps to LnSmaller testsAdded bam2wigMerge branch 'develop' into feature-bamToBigWigAdded bam2wigMerge branch 'patch-flexiprep-parse-adapters' into 'develop'Seqstat solexa testsAdded optional bam2wig stepAdded a apply functionAdd test for Gentrap initialization with minimum configRemove required from config callsRemoved required argument for config, now handled by conversions, not a option means requiredFix for error handlingFix version regexRemove bigwig from outputFix bug on relative filesMake input and output requiredMake input and output requiredMoved freeze functionFix file extension checkMake input required and remove .existResolve nullpointerUpdate HTSeq-count wrapperUpdate GSNAP wrapper testUpdate GSNAP wrapper with correct typesMerge branch 'feature-add_ids_to_filter' into 'develop'Refactor codeAdded inverted output fileMerge branch 'develop' into feature-gentrapAdd --id and --id-file optionAdd missing docsParse module status in Flexiprep FastQC wrapperMerge branch 'feature-fix_raxml' into 'develop'Add --no-bgfs optionAdded igvtoolsFix NullPointerException caused by Option[File] being nullMerge branch 'develop' into feature-bamToBigWigRefactorMerge branch 'patch-flexiprep_mapping_flags' into 'develop'Merge branch 'patch-doc_fixes' into 'develop'
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