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Only suggest git
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Lfulcrum committed Dec 20, 2024
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Expand Up @@ -153,16 +153,18 @@ It is recommended to have at least 16GB of RAM and 100GB of free storage
> [!WARNING]
> - Docker or Singularity must be running
> - An Internet connection is required
1. Clone the repository (`git` is installed on your system)
1. Clone the repository (`git` must be installed on your system)
```
git clone --recurse-submodules https://github.com/GlobalPneumoSeq/gps-pipeline.git
```
> Note: The pipeline depends on git submodules. If you don't clone with `--recurse-submodules`, you can correct this with `git submodule update --init`.
OR
- Download and unzip/extract the [latest release](https://github.com/GlobalPneumoSeq/gps-pipeline/releases).
- Click [here](./assorted-sub-workflows) and download the source code (`Code -> Download Zip`). Unzip/extract the code in the same directory as the gps-pipeline root.
To use a particular version of this pipeline, navigate into the root directory of the gps_pipeline and checkout a particular branch or tag:
```
git checkout <tag/branch>
```
See [Releases/Tags](./releases) and [Branches](./branches) for possibilities.
2. Go into the local directory of the pipeline and it is ready to use without installation (the directory name might be different)
```
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