M Bernt
**Describe the bug** The `purge` in `DELETE /api/users/USERID?purge=True` (as initiated when called from bioblend) is currently ignored. **Galaxy Version and/or server at which you observed the bug** Galaxy Version: 23.2...
another one from the microGalaxy hackaton. `bio.tools` often contain newlines which are removed by our parser, but it would be better if they would not be there at all (I...
- tools should only use available datatypes in inputs, outputs and tests - discourage the use of custom datatypes_conf.xml ## How to test the changes? (Select all options that apply)...
All seem to be at 2.6 .. latest is 2.8. xref https://github.com/usegalaxy-eu/usegalaxy-eu-tools/issues/339?
According to the docs I can > A variable or a specific sample in the metadata to normalise the counts by. If I do ``` amp_heatmap(AalborgWWTPs, normalise=T, normalise_by = 'Plant')...
I'm trying ``` data("AalborgWWTPs") amp_frequency(AalborgWWTPs, group_by = "Plant") ``` but I get: ``` Error in apply(data$metadata[, group_by], 1, paste, collapse = " ") : dim(X) must have a positive length...
I often have count tables that have an empty string in the header that marks the OTU/ASV column. So far I could not find a way to handle this directly...
Just wanted to ask if you can tell me what kind of metadata variables are supposed as input to the tools. I hope that a PR is a nice way...
For instance this test https://github.com/OpenMS/OpenMS/blob/17a07f8bdf78e471a26e7869a33004fd046ec510/src/tests/topp/THIRDPARTY/third_party_tests.cmake#L250 if the input is a link. Consequence is that for the Galaxy tools we can't use symlinks for the input data.
I try to search for taxa by name that appear on multiple levels, e.g., Elusimicrobia. On https://www.ebi.ac.uk/ena/data/warehouse/search the autocomplete suggests `Elusimicrobia ` and `Elusimicrobia `. I could not find out...