Only load modules if being used

I realised that in DSL2 there is possibly one way to reduce the size of the console logging of all the processes (which is currently very large for eager, and ends up a user losing any warnings at the top of the very long list of processes).

We could maybe not have these displayed if we only include those modules when they are requested.

e.g.

if ( params.run_deeparg ) {
    include { DEEPARG_DOWNLOADDATA } from '../modules/nf-core/modules/deeparg/downloaddata/main'
    include { DEEPARG_PREDICT      } from '../modules/nf-core/modules/deeparg/predict/main'
}

Note: each invocation of those modules will also need to be wrapped in params.run_<tool>

if ( params.run_deeparg ) {
    DEEPARG_PREDICT ( ch_input_for_deeparg, ch_deeparg_db )
    ch_versions = ch_versions.mix(DEEPARG_PREDICT.out.versions)
}

Current issue: get a

WARN: There's no process matching config selector: DEEPARG_PREDICT

But maybe this can also be invoked conditionally within modules.config?

And otherwise, DEEPARG is thus not displayed unless --run_deeparg is supplied

[a6/ea47cb] process > NFCORE_FUNCSCAN:FUNCSCAN:INPUT_CHECK:SAMPLESHEET_CHECK (input.csv) [100%] 1 of 1 ✔
[-        ] process > NFCORE_FUNCSCAN:FUNCSCAN:GUNZIP                                    -
[f5/f68fbf] process > NFCORE_FUNCSCAN:FUNCSCAN:PROKKA (deeparg1)                         [100%] 1 of 1, failed: 1 ✘
[-        ] process > NFCORE_FUNCSCAN:FUNCSCAN:FARGENE                                   -
[-        ] process > NFCORE_FUNCSCAN:FUNCSCAN:CUSTOM_DUMPSOFTWAREVERSIONS               -
[-        ] process > NFCORE_FUNCSCAN:FUNCSCAN:MULTIQC                                   [  0%] 0 of 1

nf-core / eager

Only load modules if being used #830