More consistent code conventions for e.g. indentation

[vdauwera]

As noted previously by @mribeirodantas:

          I wonder if we shouldn't stick to nf-core conventions on code indentation, i.e.

process FOO {
    publishDir ...
    some other directive ...

    input:
    val foo
    path bar

    output:
    stdout

    script:
    """

instead of

 process FOO {

    publishDir ...
    some other directive ...

    input:
        val foo
        path bar

    output:
        stdout

    script:
    """

It's not clear to me if the way we're doing it contributes a lot to readability/understanding and if it's worth teaching people differently from how most of the community writes Nextflow pipelines.

Originally posted by @mribeirodantas in #431 (comment)

[vdauwera]

As noted in #439 this dovetails with the need to align with the vscode linting.