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Updated EukPhylo QuickStart (markdown)

Godwin Ani 2025-03-06 13:18:05 -05:00
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EukPhylo-QuickStart.md

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> Note: The EukPhylo pipeline is currently being dockerised for easier installation and use. More information about the dockerfile can be found here - [Docker branch](https://github.com/Katzlab/EukPhylo/tree/Docker)
> > Note: The EukPhylo pipeline is currently being dockerised for easier installation and use. This is still in progress so please do not install. More information about the dockerfile can be found here - [Docker branch](https://github.com/Katzlab/EukPhylo/tree/Docker)
## Dockerfile
## Docker
Users will need to have the docker software running and installed. The [docker file](https://github.com/Katzlab/EukPhylo/blob/Docker/PTL2/Dockerfile) can be executed with:
Users will need to have the docker software running and installed. The [docker file](https://github.com/Katzlab/EukPhylo/blob/Docker/PTL2/Dockerfile) for part 2 can be executed with:
```bash
# Build the container
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# Current command is:
docker run -it \
--mount type=bind,src=$(pwd)/databases,dst=/Databases \
--mount type=bind,src=$(pwd)/input_data,dst=/Input_data \
--mount type=bind,src=$(pwd)/output_data,dst=/Output_data \
eukphylo:1