CLI
Command reference
User-facing avera commands grouped by task.
All commands support --json unless noted. Run avera <command> --help for flags.
| Command | Purpose |
|---|
papers list | List papers (filters available) |
papers get <id> | One paper record |
papers abstract <id> | Fetch or show abstract text |
papers context <id> | Context bundle for agents |
papers trash <id> | Move to trash |
papers restore <id> | Restore from trash |
| Command | Purpose |
|---|
import-doi <doi> | Import metadata (and OA PDF when possible) |
import-file <path> | Import PDF or reference file |
import-references <path> | BibTeX, RIS, etc. |
search <query> | Search library |
search rebuild-index | Rebuild full-text index |
| Command | Purpose |
|---|
collections list | List collections |
collections add-paper | Add paper to collection |
dedup list | List duplicate groups |
| Command | Purpose |
|---|
notes list | List notes |
notes create | Create note |
notes update | Update note body or metadata |
notes export | Export note content |
| Command | Purpose |
|---|
rss follow <url> | Follow feed |
rss list | List feeds |
rss refresh | Refresh feeds |
Requires Pro subscription.
| Command | Purpose |
|---|
manuscripts list | List manuscripts |
manuscripts create | New manuscript |
manuscripts get / update / delete / duplicate | CRUD |
manuscripts outline / sections | Structure |
manuscripts set-section | Set section body |
manuscripts cite / cite-batch / citations | Citations |
manuscripts insert-table / insert-figure / insert-cross-ref | Blocks |
manuscripts link-review | Link systematic review |
manuscripts generate-methods / generate-included-table | From review |
manuscripts insert-prisma | PRISMA block |
manuscripts validate | Schema and reference checks |
manuscripts export | DOCX, LaTeX, BibTeX |
manuscripts suggest-citations | Citation suggestions |
manuscripts compile-check | Export prerequisites |
Requires Pro + sign-in.
| Command | Purpose |
|---|
reviews list / get / create | Review projects |
screening import | Import papers into review |
screening queue | Next papers to screen |
screening decide | Record include/exclude/maybe |
screening stats | Progress counts |
screening included | Included papers list |
workflow systematic-review init | Bootstrap review + optional manuscript |
| Command | Purpose |
|---|
diagrams prisma | PRISMA diagram data |
export backup | Library backup export |
export bibliography / export csl | Citation export helpers |
| Command | Purpose |
|---|
status | Paths, counts, app running |
schema | JSON schemas |
errors | Error code catalog |
plan <command> ... | Dry-run planner |
For end-to-end systematic review → manuscript flows, combine workflow systematic-review init, screening commands, and manuscripts export. Skills in the app repo document agent-oriented examples for power users building automations.