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Add new output syntax #37

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cab334f
feat: New output syntax
adamrtalbot May 19, 2025
4f4e05c
Re-add old publishDir syntax back for continuity
adamrtalbot May 19, 2025
963af04
Merge branch 'main' into add_new_output_syntax
adamrtalbot May 20, 2025
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15 changes: 15 additions & 0 deletions main.nf
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Original file line number Diff line number Diff line change
@@ -1,3 +1,5 @@
nextflow.preview.output = true

process TEST_SUCCESS {
/*
This process should automatically succeed
Expand Down Expand Up @@ -471,5 +473,18 @@ workflow NF_CANARY {
}

workflow {
main:
NF_CANARY(params.run, params.skip, params.gpu)

publish:
outputs = NF_CANARY.out.collect()
}

output {
outputs {
path "."
index {
path params.output_index
}
}
}
13 changes: 7 additions & 6 deletions nextflow.config
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Original file line number Diff line number Diff line change
@@ -1,10 +1,11 @@
params {
skip = ''
gpu = false
run = ''
outdir = null
remoteFile = null
container = "quay.io/biocontainers/ubuntu:24.04"
skip = ''
gpu = false
run = ''
outdir = null
remoteFile = null
output_index = "outputs.json"
container = "quay.io/biocontainers/ubuntu:24.04"
}

process {
Expand Down