Rename cmd_conda to cmd_codnaenv().
new command fastp
new command varscan
new command bcftools
new command snpEff
new command bowtie2
new command bwa
new command bedtools
new command strelka
new command minimap2
new function cmd_conda to define the PATH environment variables with conda environment.
new function appmamba to install software and manage Environment with micromamba.
new function cmd_on_fail to define the expression to be evaluated when the command failed.
new function cmd_on_succeedto define the expression to be evaluated when the command succeeded.
new function cmd_on_start() to define the expressions which will be run when command started
new function cmd_on_exit() to define the expressions which will be run when command finished
new command samtools
new function cmd_parallel() to run multiple commands meanwhile
use processx package to execute the command and remove the sys and withr package from dependencies