Missing "unzip" in the silva classifier step

[d4straub]

Process make_SILVA_132_16S_classifier slipped our test runs.
Test command for fast processing e.g.:
nextflow run rrna-ampliseq -profile test,singularity --classifier false --dereplication 90

from #33

[d4straub]

removed obvious problems but unzip still doesnt work

[apeltzer]

That just requires to add conda-forge::unzip=6.0 to our environment.yaml and we're all good :-)

[d4straub]

works when I use my QIIME2 conda environment, but doesnt work with --profile singularity:
.command.sh: line 2: unzip: command not found

[apeltzer]

Probably outdated container -it doesn#t download the updated one from yesterday if there is one present in your work/singularity/... folder :-)

[d4straub]

Locally with recently pulled github repo, deleted folders work and .nextflow and run

nextflow run rrna-ampliseq -profile test,singularity --classifier false --dereplication 90 --skip_fastqc --skip_ancom --skip_diversity_indices --skip_alpha_rarefaction

but still ".command.sh: line 2: unzip: command not found"

[apeltzer]

Super weird, restarted the docker cloud build.

[apeltzer]

Ah, I see - pipeline uses latest, change is only present on dev.
I'm pushing to master to force a container update here as well and then we're good :-)

[apeltzer]

This fixes the issue locally - test it on the cluster and let me know how it goes :-)

[apeltzer]

Build finished, testing works and unzip is found :-)