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doiget Desktop Extension MCP Server

OA-first paper fetcher: DOIs/arXiv IDs to local PDFs + metadata via Open Access APIs.

Publisher claimed. No tool list reported, and Pod has not connected to this server.

Status

Pod has not dialled doiget Desktop Extension yet, so everything on this page is what its publisher reported rather than what we observed. Registries describe servers; they do not connect to them. Until a check runs, treat the tool list below as a claim.

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Reviewed GitHub reports

39 GitHub reports passed Pod's relevance review. This can include external user reports, maintainer-confirmed bugs, and concrete feature gaps. It is evidence to inspect, not a count of distinct defects. Showing 12.

Most discussed

Discovery-oriented features for agent-driven literature search (paper_search, paper_text, survey macro, MCP loop)

Motivation — agent-driven research-question discovery, not just DOI→PDF

Using doiget from an LLM agent to actually find the question (not just fetch a known DOI), the loop I want to self-complete is:

search → triage → expand(citations) → fetch → read → map/gap-analysis

Today doiget is excellent at the back half (fetch/batch/graph/bib/csl/serve/capabilities), but the front half assumes you already know the DOIs. The gaps below are what would let an agent run the whol

Read the thread · 2026-06-04 · closed · 3 comments

mcp: align tool output shapes with the CLI --mode json bodies (#204 / #205 mirror)

Purpose

#204 added --mode json bodies for the six human-table CLI commands and #205 added the ERRORS.md §3 JSONL shape for batch. The doiget-mcp tools (doiget_info, doiget_search, doiget_audit_log, doiget_batch_fetch, etc.) each have their own output schema today; they predate the CLI JSON bodies and may diverge in field names / nesting from the CLI surface.

Consistency matters because a single LLM agent often consults both (doiget serve for in-session work and `doiget cli

Read the thread · 2026-05-20 · closed · 3 comments

bug(cli): the human denial help suggests both trust flags unconditionally, while the machine path computes which one actually covers the host

Observed on doiget 0.8.9 against the #443/#461 case:

$ doiget fetch 10.1109/tsp.2018.2812747
error[CAPABILITY_DENIED]: … redirect target strathprints.strath.ac.uk not in allowlist …
  = help: that host is not on the allowlist yet; widen it in …/config.toml
          [network] trust_academic_repos = true   # 15 curated academic suffixes
          [network] trust_oa_registries  = true   # DOAJ, SciELO, Zenodo, OSF, HAL
          [[network.additional_hosts]] host = "strathprints.strath.ac.uk

[Read the thread](https://github.com/QAtlasHub/doiget/issues/478) · 2026-08-25 · closed · 2 comments

### oa-publisher allowlist omits major physics OA hosts (APS, SciPost, IOP) — 7/30 niche papers fall to metadata-only

## Summary

Dogfooding a real **finite-temperature MPS** literature collection on a
university box (via the now-working citation graph, #187) batch-fetched 30
DOIs that OpenAlex reports as Open Access. **24 succeeded; 7 were denied**
with `error[CAPABILITY_DENIED]` — the OA PDF *was discovered* but its host
is not in `oa_publisher_allowlist()`
(`crates/doiget-core/src/http.rs`) / `docs/REDIRECT_ALLOWLIST.md` §3.4.

Denied hosts (real Unpaywall `best_oa_location` targets):

| host | count | natur

[Read the thread](https://github.com/QAtlasHub/doiget/issues/193) · 2026-05-18 · closed · 2 comments

### cleanup batch (LOW): s2 dead api_key, dry_run .expect() panics, missing serde(deny_unknown_fields), SCOPE.md count mismatch

**Category: F/D — low-severity cleanup batch** (grouped like #123)

1. **core** `crates/doiget-core/src/sources/s2.rs:52-53` — `api_key` is `#[allow(dead_code)]`, never sent. Users with a Semantic Scholar key are silently rate-limited to the anonymous tier. Wire the header like APS, or document + warn.
2. **core** `crates/doiget-core/src/dry_run.rs:143,163` — `.expect()` on allowlist lookups panics `doiget plan` if a source key is ever renamed. Convert to `Result<FetchPlan, FetchError>`.
3. **mc

[Read the thread](https://github.com/QAtlasHub/doiget/issues/156) · 2026-05-17 · closed · 2 comments

### Most recent

### bug(transport): in a `metadata`-without-`citation` build, every Tier-2 optional source fails UnknownSource

Found while wiring OpenAlex into the optional chain for #461. Not fixed there because it is a different defect with its own blast radius.

## The gates disagree

The Tier-2 sources are gated on `metadata`:

```toml
# crates/doiget-core/Cargo.toml
metadata = []
citation = ["metadata"]

resolve_optional_chain is #[cfg(feature = "metadata")], and so are DataCite, Europe PMC, OpenAIRE, HAL and CORE.

Their transport gate is not:

// crates/doiget-cli/src/commands/fetch.rs:267
#[c

[Read the thread](https://github.com/QAtlasHub/doiget/issues/516) · 2026-08-26 · closed · 0 comments

### docs/INTEGRATION: all six host guides are Phase 3 placeholders that tell users to stop and wait — for a phase that shipped

A user who follows `README.md:51` to the host-integration guides is actively told not to proceed.

## Measured 2026-08-26

Every file in `docs/INTEGRATION/` carries the same banner and two unfilled TODOs:

claude-code.md Status: PLACEHOLDER (Phase 3) TODOs: 2 claude-desktop.md Status: PLACEHOLDER (Phase 3) TODOs: 2 cursor.md Status: PLACEHOLDER (Phase 3) TODOs: 2 codex.md Status: PLACEHOLDER (Phase 3) TODOs: 2 obsidian.md Status: PLA

Read the thread · 2026-08-25 · closed · 0 comments

Publish doiget to npm so the MCP entry is one line — optionalDependencies, no postinstall, Trusted Publishing

The concrete build-out of #501's priority-1 channel. Registration mechanics verified 2026-08-26.

Target

claude mcp add doiget -- npx -y doiget serve

No binary handling, no C toolchain, no PATH edit. This is also the prerequisite for the Claude Code plugin route (sibling issue), whose .mcp.json is exactly {"command":"npx","args":["-y","doiget@latest","serve"]} — the same shape the official firebase plugin ships.

What exists to package

The workspace produces one binary

Read the thread · 2026-08-25 · closed · 0 comments

test: the batch --json and MCP diagnostic wiring points would survive being disconnected

Found in the #468 review. Same shape as #413 / #442 / #454 / #458: the component works, the wiring is untested, and disconnecting it leaves the suite green.

batch --json

crates/doiget-cli/src/commands/batch.rs:535 (inside classify_joined) is the only place that threads a real FetchPaperOutcome's attempts into build_jsonl_failure.

Every test that asserts the JSONL record contains attempts / remediation calls build_jsonl_failure directly with hand-built arguments. The o

Read the thread · 2026-08-25 · closed · 1 comment

The MCP envelope and batch --json carry no resolution trace and no remediation hint, so an agent is told "blocked" and cannot find the one-line fix

Everything #443, #448 and #449 added to make a blocked fetch actionable is CLI text. The two machine-readable surfaces — the MCP tool envelope and batch --json — get none of it.

Evidence

Real doiget serve, doiget_fetch_paper, 10.1109/TSP.2018.2812747:

KEYS        : [authors, license, oa_status, ok, path, pdf, ref,
               resolver_profile, schema_version, size_bytes, source, title, year]
has attempts: False
pdf         : { status: "blocked",
                code: "NETW

[Read the thread](https://github.com/QAtlasHub/doiget/issues/459) · 2026-08-24 · closed · 0 comments

### bug(transport): the Tier-3 allowlists are never registered in the production HTTP client, so every TDM fetch fails UnknownSource

`tier_3_aps_allowlist()`, `tier_3_elsevier_allowlist()` and `tier_3_springer_allowlist()` are
implemented, feature-gated and asserted by a registry guard. **Nothing calls them.** Neither
`build_http_client` (CLI) nor its MCP twin extends `allowlists` with them, so the production
client has no entry under the `tdm-*` source keys and `ctx.http.fetch_bytes("tdm-aps", ...)`
returns `UnknownSource`.

This is #442 one layer down. #444 made the orchestrator *reach* the three sources; the transport
gate

[Read the thread](https://github.com/QAtlasHub/doiget/issues/454) · 2026-08-24 · closed · 0 comments

### feat(source): HAL — French national repository OA

Part of #413. Priority 5 — smallest scope, land last.

## Why

HAL is the French national OA repository. It holds deposits (notably in maths, physics and CS) that are absent from Crossref-centric indexes, so Unpaywall misses them.

## API

Public, no auth. Verified 2026-08-22:

GET https://api.archives-ouvertes.fr/search/?q=*:*&rows=1&wt=json → 200


Solr-style query interface; DOI lookup via the `doiId_s` field.

Terms: <https://api.archives-ouvertes.fr/docs> (record the exact ToS URL 

[Read the thread](https://github.com/QAtlasHub/doiget/issues/418) · 2026-08-22 · closed · 0 comments

[See all 20 reports Pod holds for doiget Desktop Extension](/mcp/doiget-desktop-extension/issues) — of 39 qualified upstream.

## Firsthand observations

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