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c0mpiler/alpine-omxware-base

By c0mpiler

Updated over 6 years ago

OMXware - Base docker image to get started

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c0mpiler/alpine-omxware-base repository overview

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IBM Functional Genomics Platform (formerly 'OMXWare')

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In an effort to make it easier for users and developers to get started with OMXWare, We have a 2 base docker images with python and OMXWare pre-installed. It also comes with a bunch of python libs like matplotlib, numpy along with some others.

1) Minimal: docker pull c0mpiler/alpine-omxware-base:latest


        .. code-block:: bash

         docker run -it --rm --name omxware -v "$(pwd):/opt/my_work" c0mpiler/alpine-omxware-base:latest ash

    * This is a relatively small docker image with just the required packages / libraries installed and setup.
    * Change the mount point to whatever you want on you host machine.
    * You may use this image as a base to build other docker containers / applications. Refer to: https://github.com/c0mpiler/alpine-omxware-base/blob/master/Dockerfile for specifics.

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2) JupyterLab: docker pull c0mpiler/jupyter:latest


        .. code-block:: bash

         docker run -d --name jupyter --restart always -p 8888:8888 -e JUPYTER_ENABLE_LAB=yes \
         -v /mnt/storage/jupyter:/home/jovyan/work c0mpiler/jupyter start.sh jupyter lab --LabApp.token=‘omxware’

    * This image has JupyterLab pre-installed and setup with some example OMXWare Jupyter notebooks.
    * Change the mount point ``/mnt/storage/jupyter`` to whatever you want on you host machine – so you can share files from your host with this docker image.

    * This image also has some example Jupyter notebooks for you to look at and get started.

    * Once you run the docker image – you can open up ``http://<host-name>:8888/lab?`` in your browser and the pwd is ``omxware``.

    * The host-name is that of your host machine you run this docker image on. If you are running it on your laptop, the host-name is either ``localhost`` or ``0.0.0.0``
    
    

Web Services

http://ibm.biz/omxware-api <https://api.s2s-omxware.us-south.containers.appdomain.cloud/>_


SDK Documentation:

http://ibm.biz/omxware-sdk-docs <https://ibm.github.io/omxware-pypi-docs/>_


Getting Started

https://ibm.github.io/omxware-pypi-docs/build/html/usage.html <https://ibm.github.io/omxware-pypi-docs/build/html/usage.html>_


Help / Forums

http://ibm.biz/omxware-forum <https://forum.s2s-omxware.us-south.containers.appdomain.cloud>_


Citation


  • Please contact the OMXWare Team via the Forums <http://ibm.biz/omxware-citation>_ for updated citation information prior to publishing or presenting OMXWare content.

e.g: "OMXWare: Microbial Life at Scale" IBM Research, manuscript in preparation

Tag summary

Content type

Image

Digest

Size

348.9 MB

Last updated

over 6 years ago

docker pull c0mpiler/alpine-omxware-base