Transforming Science Through Data-driven Discovery Workshop on Bringing your favorite bioinforma

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FastQC-0.11.5 

Let’s get started 1. Install Docker on your local machine 2. Figure out dependencies/binaries/source code 3. Create a Dockerfile, build and test the built image + 4. Submit the request for a “new tool” 6. Design UI for your app and use it •  CyVerse account (hAps://user.cyverse.org/register/) 5. Wait to hear from us 

Terminology •  Docker image: Ready snapshot of a configured so_ware applica

1. Install Docker hAps://docs.docker.com/docker-for-mac/ hAps://docs.docker.com/engine/installa

2. Planning Things to consider… •  What dependencies does your program have? •  Is the source code is already compiled? •  If not, how to compile your source code ? •  Best place to look is instruc

3. Create a Dockerfile, build and test Docker image FROM ubuntu:14.04.3 MAINTAINER Upendra Kumar DeviseAy LABEL Descrip

4. Tool request hAps://de.iplantcollabora

Your tool request for “fastqc“ has been completed. Before you can use your tool in the Discovery Environment, a user interface must be defined. You will find your tool listed in the Tool Editor under the name “fastqc“ and version “0.11.5“. 5. Wait to hear from us 

6. Design UI for your app and use it DEMO 

•  Containers are very powerful and has many bells and whistles •  Avoid storing data inside of containers •  Keep containers light and nimble, build on provided base images from trusted source •  Do not trust a app without Dockerfile 

The Process for Dockerizing tools in DE 

The Process for Dockerizing tools in DE 

Main Dockerfile commands •  FROM •  MAINTAINER •  LABEL •  RUN •  ENTRYPOINT •  WORKDIR •  ADD/COPY •  ENV •  EXPOSE