dsh-bioresearcher
已验证dsh-bioresearcher · v1.11.1 · Apache-2.0
Biomedical research plugin for DeepSeek Harness (dsh): biomcp MCP server tools, scientific plotting skills, and deep-research subagent
安装
dsh plugin add dsh-bioresearcher 用 dsh --profile default --dump-config 确认 layer 已生效 —— 参见安装指南。
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说明文档
DeepSeek Harness (dsh) connector / plugin
connector/dsh/ is the DeepSeek Harness (dsh) flavor of this package, providing
an automated Cordis plugin and connector bundle for DeepSeek Harness
(CLI, TUI, and Web UI).
Bundle contents
A single biomcp stdio MCP server (pinned [email protected], 120 s connection
timeout, automatic China npm mirror detection via Intl.DateTimeFormat or env)
plus four bundled skills and the bioresearcher-dr-worker subagent prompt:
| Bundled | Not bundled |
|---|---|
| bioresearcher-deep-research | bioresearcher-onboard |
| bioresearcher-plot-making | |
| bioresearcher-pubmed-weekly | |
| bioresearcher-python-setup-uv |
bioresearcher-onboard is excluded on purpose: its purpose — installing and
registering the biomcp server in harness configs — is performed automatically by
the plugin's apply hook on startup.
The bundled skill list is defined in connector/dsh/skill-bundle.json.
Architecture & runtime behavior
The plugin entry point (index.js) is an ESM module exporting a Cordis plugin:
export const name = "bioresearcher";
export const inject = ["tools", "skills"];
export async function apply(ctx, config) { ... }
When booted in a dsh profile (e.g. web, headless, tui), the plugin performs:
- Automatic MCP Server Registration:
Dynamically mounts
@deepseek-ai/dsh-mcp-clientwithserverName: "biomcp", launchingnpx -y -p [email protected] biomcpover stdio with timeout 120000 ms. DeepSeek Harness automatically registers the tools under themcp__biomcp__<tool>namespace (e.g.mcp__biomcp__article_search). - Dynamic Skills Discovery:
Reads the packaged
skills/directory and registers bundled skills onctx.skills.register(...)withsource: "bioresearcher"andresourceBasepointing to the local skill directory so relative paths in instructions resolve cleanly. - Subagent Worker Provisioning:
If an agent roster service (
ctx.agents) is present, registersbioresearcher-dr-workerwith the specialized prompt (with${CLAUDE_PLUGIN_ROOT}replaced by the installed plugin root). If absent,bioresearcher-deep-researchtransparently uses generic subagent delegation (Tier B) or sequential execution (Tier C).
Build
node scripts/ci/build-connector-dsh.mjs # dist/
node scripts/ci/build-connector-dsh.mjs --out DIR
Stages dist/bioresearcher/ (root directory inside the tarball) and writes a
reproducible dist/bioresearcher-connector_dsh-v<VERSION>.tar.gz (GNU tar
--sort=name --mtime=@0 --owner=0 --group=0 --numeric-owner piped through
gzip -n -9). CI runs this build script as a gate (.github/workflows/ci.yml),
and the release workflow attaches the tarball to every GitHub release.
Version policy
connector-meta.json and package.json version must equal the repo VERSION
(Series 1, manifest-governed via scripts/ci/version-coupling.json and enforced by
scripts/ci/check-drift.mjs). Release PRs bump them in unison with VERSION.
Installation & usage
Users can install the release archive through either of two methods:
Method A: Profile plugin installation (Recommended)
Install the package bundle directly into the target profile (e.g. web, headless, or custom profile):
dsh plugin --profile web add /path/to/bioresearcher-connector_dsh-v<VERSION>.tar.gz
dsh installs the package into the profile environment and automatically mounts the bundled cordis.patch.yml.
Method B: Standalone overlay patch
Extract the archive and load it directly via an overlay patch specifying the local package root:
tar -xzf bioresearcher-connector_dsh-v<VERSION>.tar.gz
dsh --profile web --patch <(echo "- insert: [{ id: bioresearcher, name: $(pwd)/bioresearcher/index.js }]")
Or add the entry to $DSH_HOME/cordis.patch.yml (~/.dsh/cordis.patch.yml)
to enable it across all profiles on the machine.