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v1.4.0
v1.4.0 - general: count available cpus instead of total cpus - all: fixes in config file parameters - prepare: option for single strain id - annotate: fix in gff3 header - annotate: fix in replicons header - tree: option to write distance matrix with fastME
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v1.3.0
version 1.3.0 -fix issue 11 - fix issue 14 - add TEST parameter to IQtree - add proteic alignments if asked - change pangenome filename format - coregenome: possibility to give a subset of genomes - align: take into account gembase complete genomes format
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v1.2.0
version 1.2.0 - prodigal train - 0 included for mash distances - configfile for 'all' module - add choice genbank/refseq - add ncbi taxid
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v1.1.0
version 1.1.0 - new module to run all modules: 'all' - fix bug when there is a binary file in the genomes folder - iqtree2 is by default
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v1.0.1
version 1.0.1: CHANGES - fix bugs while formatting genomes annotated by prokka - new option to select assembly level to download from NCBI