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HOWTO
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HOWTO
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./annocomba call-genes --maker --verbose --config-file data/config.Hex.yaml -t slurm --cluster-config data/cluster_config-gsc1.yaml --dry
./annocomba call-genes --maker --braker --funannotate --verbose --config-file data/config.Hex.yaml -t slurm --cluster-config data/cluster_config-gsc1.yaml --dry
#make rulegraph
./annocomba call-genes --all --verbose --config-file data/config.Hex.yaml -t slurm --cluster-config data/cluster_config-gsc1.yaml --dry --snakemake="--rulegraph" | grep "digraph" -A 10000 | dot -Tpdf > rulegraph.all.pdf
./annocomba call-genes --maker --verbose --config-file data/config.Hex.yaml -t slurm --cluster-config data/cluster_config-gsc1.yaml --dry --snakemake="--rulegraph" | grep "digraph" -A 10000 | dot -Tpdf > rulegraph.maker.pdf
./annocomba call-genes --funannotate --verbose --config-file data/config.Hex.yaml -t slurm --cluster-config data/cluster_config-gsc1.yaml --dry --snakemake="--rulegraph" | grep "digraph" -A 10000 | dot -Tpdf > rulegraph.funannotate-direct.pdf
./annocomba call-genes --braker --verbose --config-file data/config.Hex.yaml -t slurm --cluster-config data/cluster_config-gsc1.yaml --dry --snakemake="--rulegraph" | grep "digraph" -A 10000 | dot -Tpdf > rulegraph.braker.pdf
./annocomba call-genes --maker-funannotate --verbose --config-file data/config.Hex.yaml -t slurm --cluster-config data/cluster_config-gsc1.yaml --dry --snakemake="--rulegraph" | grep "digraph" -A 10000 | dot -Tpdf > rulegraph.funannotate-post_maker.pdf
#make dag
./annocomba call-genes --all --verbose --config-file data/config.Hex.yaml -t slurm --cluster-config data/cluster_config-gsc1.yaml --dry --snakemake="--dag" | grep "digraph" -A 10000 | dot -Tpdf > dag.all.pdf