shortReads_assembly.wdl should output bbcms error corrected data

[aclum]

The output of short read assembly should be included in the final output. The fastq headers do not need to be renamed but this should be included in the final workflow output and the workflow automation should make a data object for it.
This ticket is to get the WDL updated so that these bbcms task output files are get passed as outputs to the workflow, not just as outputs of the bbcms task.

        File out = filename_outfile
        File out1 = if paired then filename_outfile1 else filename_outfile
        File out2 = if paired then filename_outfile2 else filename_outfile

[vlilanl]

Shane and I tested this last week, and we had a successful run. @aclum do you want to look over it?

[aclum]

@vlilanl where is the run and would you be able to do a pull request?

[vlilanl]

This should be the run id: 8022a0d2-6443-457b-996f-de13b28cf337. I can try and do a pull request.

[vlilanl]

New ticket for nmdc_automation: microbiomedata/nmdc_automation#189