Closed amizeranschi closed 5 years ago
Thanks for the question and sorry about not having Toil right now. Due to Toil not being compatible with the latest cwltool, we're currently not including it as part of the install. It'll conflict with the arvados tools, which require an up to date cwltool. I'm hoping Toil will be compatible soon and we can re-include it, but right now if you want to evaluate toil the best way is in a separate custom environment.
Alright, thanks for explaining the situation. I hope Toil will get updated and reincluded in bcbio soon.
I've just made a fresh local install of bcbio_nextgen and then upgraded with:
I noticed that this doesn't install Toil along with Cromwell, Rabix-bunny etc. Is this intended?
Here's a list of packages that the previous command installed (among others):