add support for singularity container engine

[jorgeaguileraseqera]

Signed-off-by: Jorge Aguilera [email protected]

[pditommaso]

Nice. does this solves the problem with Singularity?

[jorgeaguileraseqera]

My problem with singularity was due to a miss config in the pipeline (I was not using the last version of it)

once fixed I'm able to run it using singularity but ... it never requests the tag list so not sure if it'll be 100% ok

[pditommaso]

I see, have you tried to run this example using singularity?

In my test was failing

[jorgeaguileraseqera]

Yes, I tested it and can't see the tag list request, maybe the sing version?

N E X T F L O W  ~  version 22.10.0
Launching `./test.nf` [wise_edison] DSL2 - revision: 2332371305
[-        ] process > foo -
Pulling Singularity image docker://4421-92-185-195-63.ngrok.io/wt/c6b884a1f5a4/pditommaso/my-secret-container:latest [cache /home/jorge/nextflow/workbook/wave/work/singularity/4421-92-185-19[-        ] process > foo [  0%] 0 of 1
Pulling Singularity image docker://4421-92-185-195-63.ngrok.io/wt/c6b884a1f5a4/pditommaso/my-secret-container:latest [cache /home/jorge/nextflow/workbook/wave/work/singularity/4421-92-185-19executor >  local (1)
[da/407b22] process > foo [  0%] 0 of 1 ✔executor >  local (1)[da/407b22] process > foo [100%] 1 of 1 ✔
Pulling Singularity image docker://4421-92-185-195-63.ngrok.io/wt/c6b884a1f5a4/pditommaso/my-secret-container:latest [cache /home/jorge/nextflow/workbook/wave/work/singularity/4421-92-185-195-63.ngrok.io-wt-c6b884a1f5a4-pditommaso-my-secret-container-latest.img]
I'm the secret command 🕵️

WARN: Singularity cache directory has not been defined -- Remote image will be stored in the path: /home/jorge/nextflow/workbook/wave/work/singularity -- Use env variable NXF_SINGULARITY_CACHEDIR to specify a different location

can you checkout the branch in your local and review it please?

[pditommaso]

Strange, I have been trying

$ singularity --version
2.4.2-dist

[pditommaso]

Our friend is back #178