Hey all, I am relatively new to developing Galaxy tools and wrappers, and I am having a problem.
I am trying to write a tool wrapper for Hybpiper, a command-based pipeline for gene enrichment:
My Galaxy instance is a local one of Galaxy 19.09, running on Ubuntu 18.04 LTS inside a virtualbox VM.
I have my shell- and python scripts working outside of Galaxy in a Conda environment running on Ubuntu, however, when I tried testing it in Galaxy for the first time using my tool.xml, all except the hybpiper dependencies were resolved.
The resolver kept running for half a day, going from channel to channel, and eventually not finding Hybpiper.
I specified the non-standard channel 'chrisjackson-pellicle' in galaxy.yml under 'conda_ensure_channels', which didn't work either.
I have been trying to modify dependency_resolvers_conf.xml, as well, without any luck
Can anyone help me with suggestions or advice?
I would very much appreciate it.
My tool.xml, as well as the scripts, can be found in my GitHub repo under the tools/hybpiper directory in the development branch:
A copy of my current galaxy.yml can also be found in the main directory as a loose file:
Thank you in advance