Main changes are conversion from nextflow DSL1 to DSL2. Additionally, the template and software was updated, as detailed below. Changed #56 - Switched to DSL2 & update to new nf-core 2.1 TEMPLATE #56 - --krakendb now expects a .tar.gz/.tgz (compressed tar archive) directly from https://benlangmead.github.io/aws-indexes/k2 instead of an uncompressed folder. Added #56 - Added full size test dataset, two Zetaproteobacteria sequenced with Illumina MiSeq Reagent Kit V2, PE250, 3 to 4 million read pairs. Fixed #51 - Fixed Unicycler Dependencies #56 - Updated a bunch of dependencies (unchanged: FastQC, Miniasm, Prokka, Porechop, QUAST) Unicycler from 0.4.4 to 0.4.8 Kraken2 from 2.0.9beta to 2.1.1 MultiQC from 1.9 to 1.10.1 PYCOQC from 2.5.0.23 to 2.5.2 Samtools from 1.11 to 1.13 Canu from 2.0 to 2.1.1-2 dfast from 1.2.10 to 1.2.14 Medaka from 1.1.2 to 1.4.3-0 Minimap 2 from 2.17 to 2.21 Nanoplot from 1.32.1 to 1.38.0 Nanopolish from 0.13.2 to 0.13.2-5 Racon from 1.4.13 to 1.4.20-1 Skewer from 0.2.2 to 0.2.2-3