Passing Environment Variables with qsub

[juliaparallel]

Passing Environment Variables with qsub

[gcamilo]

@amitmurthy

[amitmurthy]

Wouldn't it be better to use -v and specify only the env variables you need? params contains all the keyword args. You could pass a qsubenv = Dict("ENV1"=>"VAL1",....) and process them as -v options.

[gcamilo]

So adding another argument to addprocs where you can optionally choose which environment variables to pass?

[amitmurthy]

Yes. All keyword arguments to addprocs are available in params in
launch(manager::Union{PBSManager, SGEManager}, params::Dict, ..........)

[gcamilo]

So I thought of modify addprocs_sge definition:

addprocs_sge(np::Integer, queue::AbstractString="",enviromentVars::AbstractString="") = addprocs(SGEManager(np, queue),(:enviromentVars,enviromentVars))

And then modifying launch to have:

function launch(manager::Union{PBSManager, SGEManager}, params::Dict, instances_arr::Array, c::Condition)
   ...
  enviromentVars = params[:enviromentVars]
        if enviromentVars == ""
            eVars = ""
        else
            eVars = ["-v" enviromentVars]
        end

And adding this to the open command. What do you think?

[amitmurthy]

Yes, this should work.

[gcamilo]

Ok, I'll amend my fixQueue pull request to make it take care of this.

[gcamilo]

fixed with #33