Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Fixed the Dockerfile #251

Merged
merged 5 commits into from
Feb 22, 2024
Merged
Show file tree
Hide file tree
Changes from all commits
Commits
File filter

Filter by extension

Filter by extension

Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
10 changes: 0 additions & 10 deletions Dockerfile

This file was deleted.

2 changes: 1 addition & 1 deletion README.md
Original file line number Diff line number Diff line change
Expand Up @@ -37,7 +37,7 @@ _Note:_ Insilicoseq requires python >= 3.5
Alternatively, with docker:

```shell
docker pull hadrieng/insilicoseq:latest
docker pull quay.io/biocontainers/insilicoseq:2.0.0--pyh7cba7a3_0
```

For more installation options, please refer to the full [documentation](http://insilicoseq.readthedocs.io)
Expand Down
5 changes: 3 additions & 2 deletions doc/iss/install.rst
Original file line number Diff line number Diff line change
Expand Up @@ -63,15 +63,16 @@ If you wish to use InSilicoSeq using docker

.. code-block:: bash

docker pull hadrieng/insilicoseq:latest
docker pull docker pull quay.io/biocontainers/insilicoseq:<tag>

Where <tag> should be chosen amongst the tags available on `quay.io <https://quay.io/repository/biocontainers/insilicoseq?tab=tags>`_ .
To use InSilicoSeq with docker, you need to provide a `volume` to the ``docker run`` command.
Given with the ``-v`` option, the volume is your way of exchanging data (in this case, your input and output files) with the docker container.

.. code-block:: bash

docker run -v /Users/hadrien/data:/mnt/data -it --rm \
hadrieng/insilicoseq iss generate \
quay.io/biocontainers/insilicoseq:<tag> iss generate \
--genomes /mnt/data/genomes.fasta -m miseq \
-o /mnt/data/reads

Expand Down
Loading