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Merge pull request #1068 from ewels/1.14-review-comments
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Fix review comments from @maxulysse in #1066
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maxulysse authored May 11, 2021
2 parents f07f7b7 + d731d3d commit 193bc8e
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2 changes: 1 addition & 1 deletion CHANGELOG.md
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* Fix bug in nf-core lint config skipping for the `nextflow_config` test [[#1019](https://github.com/nf-core/tools/issues/1019)]
* New `-k`/`--key` cli option for `nf-core lint` to allow you to run only named lint tests, for faster local debugging
* Merge markers lint test - ignore binary files, allow config to ignore specific files [[#1040](https://github.com/nf-core/tools/pull/1040)]
* New lint test to check if params in `nextflow config` are mentioned in `main.nf` [[#1038](https://github.com/nf-core/tools/issues/1038)]
* New lint test to check if all defined pipeline parameters are mentioned in `main.nf` [[#1038](https://github.com/nf-core/tools/issues/1038)]
* Added fix to remove warnings about params that get converted from camelCase to camel-case [[#1035](https://github.com/nf-core/tools/issues/1035)]
* Added pipeline schema lint checks for missing parameter description and parameters outside of groups [[#1017](https://github.com/nf-core/tools/issues/1017)]

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8 changes: 8 additions & 0 deletions README.md
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Expand Up @@ -113,6 +113,14 @@ nf-core list
You can use docker image tags to specify the version you would like to use. For example, `nfcore/tools:dev` for the latest development version of the code, or `nfcore/tools:1.14` for version `1.14` of tools.
If you omit this, it will default to `:latest`, which should be the latest stable release.

If you need a specific version of Nextflow inside the container, you can build an image yourself.
Clone the repo locally and check out whatever version of nf-core/tools that you need.
Then build using the `--build-arg NXF_VER` flag as follows:

```bash
docker build -t nfcore/tools:dev . --build-arg NXF_VER=20.04.0
```

### Development version

If you would like the latest development version of tools, the command is:
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2 changes: 1 addition & 1 deletion nf_core/pipeline-template/README.md
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Expand Up @@ -19,7 +19,7 @@ The pipeline is built using [Nextflow](https://www.nextflow.io), a workflow tool

## Quick Start

1. Install [`nextflow`](https://nf-co.re/usage/installation) (`>=21.04.0`)
1. Install [`nextflow`](https://nf-co.re/usage/installation) (`>=20.04.0`)

2. Install any of [`Docker`](https://docs.docker.com/engine/installation/), [`Singularity`](https://www.sylabs.io/guides/3.0/user-guide/), [`Podman`](https://podman.io/), [`Shifter`](https://nersc.gitlab.io/development/shifter/how-to-use/) or [`Charliecloud`](https://hpc.github.io/charliecloud/) for full pipeline reproducibility _(please only use [`Conda`](https://conda.io/miniconda.html) as a last resort; see [docs](https://nf-co.re/usage/configuration#basic-configuration-profiles))_

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