Basically when running bowtie2 and writing unaligned files (I,m decontaminating host genomes in metagenomes), I zip the two resulting collections using Zip collections. Then, I use Concatenate multiple datasets so each of my paired fastqs become one (this is required to run the HUMAnN tool). It works, but when I try to stitch these tools together in workflow editor, I cannot connect the Zip collection output to the Concatenate multiple datasets input.
To be clear, this works when running these tools one by one from a history. Currently, extract workflows seems broken (see Workflow extraction issue - #11 by wm75) so I can’t check that.
This is on useGalaxy.ca but since this is a workflow editor specific problem, I thought it best to post here (that’s what the sysadmin advised)
