Rutger Vos

Make glossary

1

We want an index that links terms to the pages they occur on. From among those terms we pick the ones we want to give a definition, and this becomes...

Quizzes

1

The gitbook "quizzes" plugin needs to be tested / used for exercises.

Course planning

3

What do we want to do: - [x] describe learning objectives - [x] describe target learner and pre-requisites - [x] identify learning outcomes and scope (#2) - [x] decompose into...

No periods or tildes in file paths

3

Hi Dom, when I try to run a dummy analysis I run into the issue that my $HOME directory is /Users/rutger.vos, which the code wants to parse on the period....

Dockerize

1

Following the approach in [naturalis/galaxy-tool-cutadapt-docker](https://github.com/naturalis/galaxy-tool-cutadapt-docker)

...because blatantly copying their coordinates to increase the span of the mRNA might result in: "ERROR: valid [SEQ_FEAT.FeatureBeginsOrEndsInGap] Feature begins or ends in gap FEATURE: mRNA"

- [x] **Good code documentation** - meaning both documentation at the level of methods (in progress, getting there) and at the user level, i.e. a **Usage example** with a simple,...

Code review

1

Code review =========== ---- - [ ] **Probleem: hard coderen van paden op veel locaties** Op heel veel plekken los van elkaar worden dezelfde paden hard gecodeerd in de code....

Data reorganization

2

The data folder **needs to go**. Roughly the following needs to happen: - [x] GIS data are 3rd party assets. They go in some ephemeral, local folder that we don't...