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Godwin Ani 2025-03-06 13:17:35 -05:00
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Home.md

@ -6,10 +6,10 @@ We also provide a suite of utility scripts for describing data output by EukPhyl
Note that EukPhylo used to go by the name of "PhyloToL," hence some residual instances where we refer to "PTL1" and "PTL2" instead of "EukPhylo part 1" and "EukPhylo part 2" respectively (for instance, in the Github folder structure).
> 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
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
@ -17,7 +17,6 @@ docker build -f Dockerfile.txt . --tag eukphylo:1
# 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