Shared memory feature with Snakemake STAR wrapper

[RuiyuRayWang]

This is a duplicate issue of
snakemake/snakemake#1259 (comment)

I'm writing a pipeline using STAR aligner. The task involves sequentially aligning fastq files to the same genome index. To speed up the alignment, I figured that the "shared memory" feature can be used to avoid repeatedly loading and un-loading the genome index.

I have tried and successfully achieved this with STAR pre-built on my machine or STAR built by the integrated package management in snakemake.
I reallly want to use the Snakemake wrapper to do this as it provides better transportability. However, the "STAR align" wrapper requires "fq1" as a minimum input which prevents the "un-load" step of STAR genome index.

The shell command for STAR to unload genome doesn't have any input or output, which is why the current wrapper cannot be used:

STAR --genomeLoad Remove --genomeDir {input.index}

Would it be possible to modify the existing code to make this feature possible?

It may be even better to add a new wrapper sub-commands under star (i.e. STAR GENOMELOAD) that incorporates both --genomeLoad LoadAndExit and --genomeLoad Remove options.

[RuiyuRayWang]

Created a pull request for this:
#421 (comment)

First time contributing to the repo, correct me if I made any mistakes. Thanks!

[RuiyuRayWang]

Closing this issue as Snakemake service support has been explicitly developed to address similar jobs at backend. Thanks @johanneskoester!

Check out the relevant links:
#421
snakemake/snakemake#1413

[moxgreen]

I'm also interested in this feature. Unfortunately the provided links do not work.
Where can I find documentation about how to use shared memory in STAR wrapper?