Redmar van den Berg

When using the `--git-aware` flag, pytest-workflow crashes with a wall of errors if your project has git submodules, but you haven't cloned the submodules yet. It is hard to tell...

Phyloxml trees with colored nodes or branches are sometimes displayed in black and white. Opening additional trees in archaeopteryx tends to solve this issue, as does restarting the app. This...

I have created an Ubuntu snap package for archaeopteryx, to make it easy for ubuntu users to install it. For now, it is based of the .jar from the latest...

Feature request

7

Would it be possible to add an option to specify the HLA database folder to use, rather than using the hardcoded 'db' option?

I ran into the following problem using the latest pyvcf from pip. I should note that this is for the following haploid record. ``` #CHROM POS ID REF ALT QUAL...

reading then writing FT annotation gives an invalid VCF file

1

I introduced a bug when implementing the proper parsing of the FT annotation. I forgot to include code to correctly write the FT annotations. Right now, PyVCF produces an invalid...

It would be great if cutadapt could accept multiple FastQ files (or FastQ pairs, for paired data) as input, and write the trimmed reads to the same output file(s). This...

# Issue pytest-workflow crashes with a cryptic jsonschema validation error if it finds an empty yml file # How to reproduce Go to any folder that has working pytest-workflow tests...