[nathanthorpe]

Add syntax to run analysis with structured inputs

        process.run_analysis(
            name="Output",
            project_id=dataset.project_id,
            structured_inputs={
                "samplesheet": [
                    {
                        "sample": "sample1",
                        "fastq_1": files.get_by_id("data/sample1_R1.fastq.gz").cirro_uri,
                        "fastq_2": files.get_by_id("data/sample1_R2.fastq.gz").cirro_uri,
                    },
                ]
            }
        )

Or a sheet

sheet = project.get_sheet_by_name("Samples").to_dataframe()
process.run_analysis(
            name="Output",
            project_id=project.id,
            structured_inputs={"samplesheet": samplesheet}
        )

Modify to_dataframe on sheet to use _row_id as an index and not include sys_* columns unless asked for explicitly (to make sheet to structured input work better)

[sonarqubecloud]

Quality Gate passed

Issues
0 New issues
0 Accepted issues

Measures
0 Security Hotspots
84.2% Coverage on New Code
0.0% Duplication on New Code

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