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Created with Raphaël 2.2.025Jun2414131211109843230May2928272615141312119876130Apr29262524232221201918161525Mar191817updared rgi env (old one could not be build)report: initial setupconfig and slurm updateAdded "certified fresh" badge.65-mock-identif…65-mock-identify-characterize-genes-in-flye-which-explain-low-q-s-ration-in-diamond-hitsmv r.yml in report/report: incl rmarkdown in r.yamlmv figures.yml to config/rm data and src_SBB in report/rm src/; renamed snakemake file in report/mv figures to reportmv figures/srcmajor update: mapping, assembly, annotation, analysis (not all tested)updated annotation rules (not tested)updated slurm config and changed a rule nameassembly w/ operams: added perl for execution (issue #40), minor change of rule nameassembly/mapping step: some fixes; added operams (issue #40)updated assembly/mapping stepupdated gitignoreupdated annotation (not tested)changed structure to incl metat: updated prepare_input and preprocessing, other minor changesmv main snakemake file, rm sep. preproc files for sr/lrannotation step update (not finished): added RGI and PlasFlowstarted to incl annotation (not finished)mv old rule and step files to backup sub-folder (will be replaced by new files)increased num of cpus and running time for medakaassembly step update: new file structurerm workflow/steps/mapping.smk (incl in assembly)changed mapping, added polishing and (ave) covadded mappingminor update in workflow/rules/assembly.smkbug fix in rules/preprocessing_lr.smk: output path in guppy CMDupdated cmd for megahit in rules/assembly.smkbug in rules/preprocessing_lr.smk: fixed guppy cmdsbatch.sh: more cores for snakemakeupdated slurm.yamlinit setup for preprocessing and assemblyupdated input preparation rulesinitial fast5 setup, basecalling and nanostatrenamed configMerge branch 'fixed_assembly_annotation_rules' into 'master'