nf-core/mag: Changelog

The format is based on Keep a Changelog and this project adheres to Semantic Versioning.

v1.1.0 - 2020/10/06

#35 - Add social preview image
#49 - Add host read removal with Bowtie 2 and according custom section to MultiQC
#49 - Add separate MultiQC section for FastQC after preprocessing
#65 - Add MetaBAT2 RNG seed parameter --metabat_rng_seed and set the default to 1 which ensures reproducible binning results
#65 - Add parameters --megahit_fix_cpu_1, --spades_fix_cpus and --spadeshybrid_fix_cpus to ensure reproducible results from assembly tools
#66 - Export depth.txt.gz into result folder
#67 - Compress assembly files
#82 - Add nextflow_schema.json
#104 - Add parameter --save_busco_reference

#29 - Fix MetaBAT2 binning discards unbinned contigs #27
#31, #36, #76, #107 - Fix links in README
#47 - Fix missing MultiQC when --skip_quast or --skip_busco was specified
#49, #89 - Added missing parameters to summary
#50 - Fix missing channels when --keep_phix is specified
#54 - Updated links to minikraken db
#54 - Fixed Kraken2 dp preparation: allow different names for compressed archive file and contained folder as for some minikraken dbs
#55 - Fixed channel joining for multiple samples causing MetaBAT2 error #32
#57 - Fix number of threads used by MetaBAT2 program jgi_summarize_bam_contig_depths
#70 - Fix SPAdes memory conversion issue #61
#71 - No more ignoring errors in SPAdes assembly
#72 - No more ignoring of BUSCO errors
#73, #75 - Improved output documentation
#96 - Fix missing bin names in MultiQC BUSCO section #78
#104 - Fix BUSCO errors causing missing summary output #77

#29 - Change depreciated parameters: --singleEnd -> --single_end, --igenomesIgnore -> --igenomes_ignore

Initial release of nf-core/mag, created with the nf-core template.