Correctly scan for 'stdout' expansion when file contains multiple tools.
Correctly scan for 'stdout' expansion when file contains multiple tools.

dleehr/cwltool,chapmanb/cwltool,chapmanb/cwltool,dleehr/cwltool,chapmanb/cwltool,jeremiahsavage/cwltool,jeremiahsavage/cwltool,common-workflow-language/cwltool,jeremiahsavage/cwltool,dleehr/cwltool,common-workflow-language/cwltool,chapmanb/cwltool,jeremiahsavage/cwltool,SciDAP/cwltool,SciDAP/cwltool,dleehr/cwltool,common-workflow-language/cwltool,SciDAP/cwltool,SciDAP/cwltool