build bioconductor docker image

This assignment walks you through modifying an bioconductor docker images by installing asciinema and saving the new docker image to dockerhub. asciinema is a free and open source solution for recording terminal sessions and sharing them on the web. Docker is tool that packages software into self-contained computing environments, called containers. Docker Hub is a hosted repository service provided by Docker for finding and sharing container images with others.

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Learning Objectives:

• build a docker image
• create a screen-cast
• run the bioconductor/bioconductor_docker container via docker
• save changes to a new docker image
• push the new docker image to dockerhub

Assignment

1. Complete the assignment described below.
2. Upload a link to your dockerhub account.
3. Upload a link with screen-cast.

Prerequisites

• create an asciinema account using email at asccinema.org
• create a dockerhub account

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Assignment Points

Rubric	Points
Dockerhub	-/5
Screencast	-/5
On Time	-/5
Total Points: -/15

Getting Started

1. open docker teminal

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2. clone repo and navigate to directory

cd ~/bioconductor

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3. create a new container that installs asciinema using a dockerfile

docker build -t bioconductor_asciinema .

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4. boot into the new docker container

docker run -it bioconductor_asciinema:latest bash

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5. start a screen-cast from within the container

asciinema rec

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6. link your container to your asciinema.org account by opening the URL in a web browser

asciinema auth

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7. add screen-cast headers and check your docker container

# GMS6804
# name: [your-name-here]
# date: [current-date]
# semester: [current-semester]
# assignment: quiz07- bioconductor-asciinema  

# check if R is installed?
R
# check if bioconductor package installed:
library(Biostrings)
sequences <- c("AAATCGA", "ATACAACAT", "TTGCCA")
sequences
dna <- DNAStringSet(sequences)
dna
reverse(dna)
reverseComplement(dna)
quit()

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8. exit out of container

CTRL-D

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9. login to dockerhub

docker login
login: [YOUR DOCKERHUB ID]
pwd: [YOUR PASSWORD]

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10. tag container

docker tag bioconductor_asciinema [YOUR DOCKERHUB ID]/bioconductor_asciinema:[month_year]
docker push [YOUR DOCKERHUB ID]/bioconductor_asciinema:[month_year]