https://github.com/inab/vre_progeny_executor
PROGENy tool job executor for iPC VRE
https://github.com/inab/vre_progeny_executor
ipc ipc-project progeny tool vre wrapper
Last synced: over 1 year ago
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PROGENy tool job executor for iPC VRE
- Host: GitHub
- URL: https://github.com/inab/vre_progeny_executor
- Owner: inab
- License: apache-2.0
- Created: 2020-07-28T08:40:12.000Z (almost 6 years ago)
- Default Branch: master
- Last Pushed: 2022-08-30T10:22:42.000Z (almost 4 years ago)
- Last Synced: 2025-01-06T07:25:45.065Z (over 1 year ago)
- Topics: ipc, ipc-project, progeny, tool, vre, wrapper
- Language: Python
- Homepage: https://vre.ipc-project.bsc.es/
- Size: 979 KB
- Stars: 0
- Watchers: 9
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
- License: LICENSE
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README
# VRE PROGENy Tool Executor
## Requirements
- Python 3.6 or later
- R 4.0.2 or later
- [git](https://git-scm.com/downloads)
```bash
sudo apt update
sudo apt install python3
sudo apt install r-base
sudo apt install git
```
In order to install the Python dependencies you need `pip` and `venv` modules.
```bash
sudo apt install python3-pip python3-venv
```
## Installation
Directly from GitHub:
```bash
cd $HOME
git clone https://github.com/inab/vre_progeny_executor.git
cd vre_progeny_executor
```
Create the Python environment:
```bash
python3 -m venv venv
source venv/bin/activate
pip install --upgrade pip wheel
pip install -r requirements.txt
```
## Run the Wrapper
```bash
./VRE_RUNNER --config tests/basic/config.json --in_metadata tests/basic/in_metadata.json --out_metadata out_metadata.json --log_file VRE_RUNNER.log
```
## License
* © 2020-2022 Barcelona Supercomputing Center (BSC), ES
* © 2020-2022 Heidelberg University Hospital (UKL-HD), DE
Licensed under the Apache License [Version 2.0](https://www.apache.org/licenses/LICENSE-2.0), see the file `LICENSE` for details.