I found the tools panel somewhat confusing to use. If I understand it correctly, its purpose is to link file formats to default tools and tool settings. If so, I would suggest:
Move "File Format" widget to the top (from a user's point of view this is the starting point)
"Action Type" below "File Format"
I think the naming of the "Characterize" Action Type is unfortunate because this term has been used for quite different things. Some definitions use it as an umbrella term that includes (technical) feature extraction, identification and validation (see e.g. the Library Of Congress Digital Collections Management Glossary whereas others restrict its meaning to technical feature extraction only (see e.g. this paper by Chou). If the intended purpose is technical metadata/feature extraction (but I'm not sure it is?) I would suggest to name it accordingly (e.g. "feature extraction").
I found the tools panel somewhat confusing to use. If I understand it correctly, its purpose is to link file formats to default tools and tool settings. If so, I would suggest: