v1.6.9

• Do not mount home directory by default with singularity containers
• Switch to biocontainer image for SISTR

v1.6.8

• Use a specific version of Porechop (quay,io/biocontainers/porechop:0.2.4--py310h30d9df9_3)
• Unify the process tags to print sample_id instead of filenames

v1.6.7

• Increased run duration of medium/high usage process
• Updated virulence factor database (VFDB) searched by abricate - 4,332 targets

v1.6.6

• Fixed --annot parameter expecting str object

v1.6.5

• Fixed error reporting artificial sequences in Kraken2 reports
• Use nf-core schema to validate pipeline options

v1.6.4

• The taxonomic summary will now report abundance information for artificial sequences
• Increased default heatmap width in annotation reports
• Fixed taxonomic summary table crosstalk with other HTML widgets in QC report

v1.6.3

• Increased max runtime duration for medium compute processes
• Use image versions compatible with Compute Canada environments
• Reorganized workflow help msg structure

v1.6.2

• Slurm HPC support available via -profile slurm

v1.6.1

• Fixed missing Docker configuration for Nanoq
• The pipeline will filter for R1/R2 FASTQ files only when analyzing Illumina data

v1.6.0

• Added support for processing Illumina data with --seq_platform option
• Restructured the code base to use platform-based workflows
• Added nanoq to perform quality filtering on Nanopore reads based on base quality and read length
• Added FastQC and MultiQC for Illumina read QC reporting
• Added NanoComp for Nanopore read QC reporting