Skip to content
Snippets Groups Projects
Commit 05f15db0 authored by Julien.Prados's avatar Julien.Prados
Browse files

add docker.io to FROM directive

parent 19633999
No related branches found
No related tags found
No related merge requests found
Pipeline #98127 passed
FROM python:3.10-slim-bullseye
FROM docker.io/python:3.10-slim-bullseye
RUN apt-get update -qq && apt-get install -y -qq \
git \
......
......@@ -2,19 +2,15 @@
# Introduction
`cgetools` is s docker container with an installation of several
[CGE]([https://bitbucket.org/genomicepidemiology/]) softwares and associated
databases (mlst,plasmidfinder,resfinder).
`fatools` is s docker container with several command to handle FASTA files.
# Usage
To use the tool, you need to mount the working directory on `/cwd`. Example:
```bash
docker run --rm -v .:/cwd registry.gitlab.unige.ch/amr-genomics/cgetools plasmidfinder.py
docker run --rm -v .:/cwd registry.gitlab.unige.ch/amr-genomics/cgetools mlst.py
docker run --rm -v .:/cwd registry.gitlab.unige.ch/amr-genomics/cgetools python3 -m resfinder
docker run --rm -v .:/cwd registry.gitlab.unige.ch/amr-genomics/fatools fa_reheader
docker run --rm -v .:/cwd registry.gitlab.unige.ch/amr-genomics/fatools fa_rotate
```
......@@ -22,7 +18,7 @@ docker run --rm -v .:/cwd registry.gitlab.unige.ch/amr-genomics/cgetools python3
To build the container, run:
```bash
docker build --platform linux/amd64 -t registry.gitlab.unige.ch/amr-genomics/cgetools ./
docker build --platform linux/amd64 -t registry.gitlab.unige.ch/amr-genomics/fatools ./
```
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment