Collaborative git

Previous: Solo git

Next: Functions, namespace, memory management

Required course material for the lesson

Powerpoint: Git
Optional - do you want to know more
Online: Coderefinery's introduction to git This is one of many git resources on the net.
Online: Markdown guide
Online: CI/CD - Continuous Integration and Continuous Delivery. It’s a DevOps practice used with GitHub/GitLab.

Subjects covered

• GitHub - inviting people to your repo
• Git - branching, merging

Exercises to be handed in

Do the exercises in Python where applicable. Use git to track changes. Make one program per exercise (if relevant). Commit at least once per solved exercise - more often if you feel it relevant. At the end push everything to GitHub or more frequently if that is your pleasure - backup is nice. You gather all exercises into one file and hand that in on DTU Learn, hint cat in Unix. This is going to be the way we operate for large parts of the course.

1. Create a new private repository for your collaborative exercises for this single lesson on GitHub as described in the powerpoint. You can choose whatever name you like for the repository. FromInvite preferably one (max two, if a person is left out) fellow students to your repository. You are to "share" repositories.
   
   

1. Copy exercise 9 from last week into your new repository and introduce an error in it

1. The input file scores.txt is a tab-separated file with an accession number in first column followed by 6 numbers (scores) between 0 and 1. You must find the accession numbers and scores (that means the entire line) of the 10 highest and 10 lowest "combined scores" (combined score is the metric for selection) and save the output in the file scoresextreme.txt.
   The combined score is simply the 6 numbers added together. The order of the output must be from high to low.
2. Change exercise 2 in the following way: There is an input file, negative_list.txt, which is a list of genes which can NOT be part of the output. They are banned from your analysis. As can be seen, the genes are identified by their swissprot id. In order to translate from swissprot id to accession number so you can relate it to the scores.txt, you must use the input file translation.txt, where the first item on the line is a accession number, second item is the corresponding swissprot id.