The initial indir is where samples are found
All output is written relative to the outdir
Special variables that can have input/output
Coerce dirs to absolute paths (True) Keep paths as relative directories (False)
Sometimes you want a type specific way of processing directives. This will generally require two different methods
process_directive* walk_directives*
process_directive gives some official parameters walk_directives walks the data structure
Take a look at the methods in 'BioX::Workflow::Command::run::Rules::Directives::Walk'
Your functions will probably be very similar
Invoke with walk { wanted => sub { $self->directives(@_) } }, $self->other_thing;
Acts funny with $self->some_other_thing is not a reference
To install BioX::Workflow::Command, copy and paste the appropriate command in to your terminal.
cpanm
cpanm BioX::Workflow::Command
CPAN shell
perl -MCPAN -e shell install BioX::Workflow::Command
For more information on module installation, please visit the detailed CPAN module installation guide.