I'm on galaxy-dist. I have a tool that outputs an unknown amount of
files in a directory, all of which I need for input to the next tool. I
used to tar them, but after a tip from John Chilton, I tried to fit this
into Galaxy's composite datatypes. The tool now works, but I wonder if
there is a better way to do it than how I have implemented it. I ran
into some trouble when my new datatype's generate_primary_file was never
called. (Is this only used after an upload?)
My tool now outputs to the output.extra_files_path given to it on the
xml command line, and writes an HTML file to the output file it is
given. The next tool reads input.extra_files_path, and uses the files
there. In other words, no use has been made of add_composite_file,
generate_primary_file, etc. I can even set composite_file=None in the
datatype, and it will still work.
The whole thing feels a bit like a hack, so I wanted to ask if there is
a way for tools to generate composite files the same way uploads can.
Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at: