bart
Having files HTTP files as input, defining a cache directory with the --cachedir option results in a _Workflow error_. Runs successfully without. ## Expected Behavior Same behaviour as without --cachedir...
To understand what is happening in my actual dataset, I generated perfect insilico reads (1M paired end (2x500k 125bp)) from a (bacterial) genome and used those as input for kraken2....
More guidance on how to use dependent and mutually exclusive inputs in a multi-stepped workflow would be nice. I could only find something in the FAQ: [https://www.commonwl.org/user_guide/faq.html#contents](https://www.commonwl.org/user_guide/faq.html#contents) Some examples for...
Hello! Thank you for developing this tool. It seems like an efficient way to remove not just human but any type of (additional) reference. (Please correct if I'm mistaken) Could...
Currently you can only get uncompressed reads when using `--classified` and `--unclassified` . Would be very convenient to have the option having them compressed coming out of kraken2. Read files...