From ba5a62b812d9e70563df3df99e614884e73a2021 Mon Sep 17 00:00:00 2001 From: Phil Ewels Date: Tue, 3 Dec 2024 14:11:50 +0100 Subject: [PATCH 1/3] [docs] Fargate: explain Wave Signed-off-by: Phil Ewels --- docs/aws.md | 1 + 1 file changed, 1 insertion(+) diff --git a/docs/aws.md b/docs/aws.md index ba518ad7ae..bf0ab0e21e 100644 --- a/docs/aws.md +++ b/docs/aws.md @@ -540,6 +540,7 @@ and the Batch Execution Role. :::{note} This feature requires the use {ref}`Wave ` container provisioning service. +This is because `s5cmd` is used to stage and unstage data which is augmented into the task container via wave. ::: ## Advanced configuration From ef6483a7628e8d247bbdb2ec2fbb86d2231c39f4 Mon Sep 17 00:00:00 2001 From: Phil Ewels Date: Wed, 4 Dec 2024 11:07:07 +0100 Subject: [PATCH 2/3] Suggested change by @pditommaso Signed-off-by: Phil Ewels --- docs/aws.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/docs/aws.md b/docs/aws.md index bf0ab0e21e..07fa5fba7a 100644 --- a/docs/aws.md +++ b/docs/aws.md @@ -539,8 +539,8 @@ See the AWS documentation for details how to create the required AWS Batch queue and the Batch Execution Role. :::{note} -This feature requires the use {ref}`Wave ` container provisioning service. -This is because `s5cmd` is used to stage and unstage data which is augmented into the task container via wave. +Nextflow uses the [s5cmd](https://github.com/peak/s5cmd) to download the task input data and upload the task outputs. +To allow this capability in your pipeline, you need to enable the Wave service in the Nextflow configuration, as shown in the above example. See {ref}Wave documentation for more details. ::: ## Advanced configuration From f7dc709edd951a6dbaf8c04ed59642486065cc1a Mon Sep 17 00:00:00 2001 From: Paolo Di Tommaso Date: Wed, 4 Dec 2024 11:10:25 +0100 Subject: [PATCH 3/3] Update docs/aws.md [ci skip] Co-authored-by: Christopher Hakkaart Signed-off-by: Paolo Di Tommaso --- docs/aws.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/docs/aws.md b/docs/aws.md index 07fa5fba7a..84ab5c448f 100644 --- a/docs/aws.md +++ b/docs/aws.md @@ -539,8 +539,8 @@ See the AWS documentation for details how to create the required AWS Batch queue and the Batch Execution Role. :::{note} -Nextflow uses the [s5cmd](https://github.com/peak/s5cmd) to download the task input data and upload the task outputs. -To allow this capability in your pipeline, you need to enable the Wave service in the Nextflow configuration, as shown in the above example. See {ref}Wave documentation for more details. +Nextflow uses [s5cmd](https://github.com/peak/s5cmd) to download the task input data and upload the task outputs. +To enable this capability, you need to enable the Wave service in the Nextflow configuration, as shown in the above example. See {ref}Wave documentation for more details. ::: ## Advanced configuration