AI4L: Instructions file for Codex

Project Instructions

Session related

• For interactive conversations, follow "prompts/PERSONA.md"

Glossary

• "ER" stands for evidence review

• "_ER.md" refers to the .md file of an ER

• "ER.md" refers to the ER prompt ([er_prompt]), never to an ER file

• "QA" stands for quality assurance; a "QA audit" is the audit of an ER against ER.md

• "_ER_QA.md" refers to the .md file of a QA of an ER

Timestamps

• When generating timestamps (for filenames, headers, etc.), always obtain the current date/time by running date in the shell. Never use the model's internal clock, as it may differ from the local timezone.

Globals for Skills and @Agents

• [er_prompt] = "prompts/ER.md"

• [creation_dir] = "creation/"

• [tmp_dir] = "creation/tmp/"

• [trash_dir] = "creation/trash/"

• [library_dir] = "library/"

• [max_audits] = 20

• [needed_passes] = 1

Hard Rule

• NEVER modify any files outside of [creation_dir], [tmp_dir], or [trash_dir] without explicit user permission. This includes, but is not limited to, files in the root directory, configuration files, and any other files not in the listed directories.

When Calling @Agents

• ALWAYS call the @agent exactly as specified in the prompt
• DO NOT modify the prompts for the @agent or the way to call them; pass the prompt as it is.
• DO NOT modify the arguments you pass to the @agent; pass them as they are.

MCP Servers

When calling d-pubmed (pubmed_fetch_articles), always pass 'pmids' as a proper JSON array of strings, never as a comma-separated string or single value

When verifying PubMed URLs, use mcp__d-pubmed__pubmed_fetch_articles first. If the PMID resolves, that is the verification; only if it does not resolve, fall back to the chain below.

When verifying ClinicalTrials.gov URLs, use mcp__d-clinicaltrialsgov__clinicaltrials_get_study_record first. If the NCT ID resolves, that is the verification; only if it does not resolve, fall back to the chain below.