Biostudies Arrayexpress Skill

• Read one JSON object from stdin.
• Required fields: base_url, path
• Optional fields: method, params, headers, json_body, form_body, record_path, response_format, max_items, max_depth, timeout_sec, save_raw, raw_output_path
• Common BioStudies patterns:
  • {"base_url":"https://www.ebi.ac.uk/biostudies/api/v1","path":"search","params":{"query":"rna","page":1,"pageSize":10},"record_path":"hits","max_items":10}
  • {"base_url":"https://www.ebi.ac.uk/biostudies/api/v1","path":"ArrayExpress/search","params":{"query":"single cell","page":1,"pageSize":10},"record_path":"hits","max_items":10}
  • {"base_url":"https://www.ebi.ac.uk/biostudies/api/v1","path":"studies/E-MTAB-6701"}

Output

• Success returns ok, source, path, method, status_code, warnings, and either compact records or a compact summary.
• Use raw_output_path when save_raw=true.
• Failure returns ok=false with error.code and error.message.

Execution

echo '{"base_url":"https://www.ebi.ac.uk/biostudies/api/v1","path":"search","params":{"query":"rna","page":1,"pageSize":10},"record_path":"hits","max_items":10}' | python scripts/rest_request.py

References

• No additional runtime references are required; keep the import package limited to this file and scripts/rest_request.py.