pubmed-stream 0.4.4

Fixes from a review of 0.4.3. Registering the server by hand now covers every folder, with claude mcp add --scope user; pubmed-stream init decides whether the Claude Code plugin is on exactly as Claude Code does; and tutorial 7's new option C connects the chat of the Claude desktop app.

pubmed-stream is also listed in the official MCP Registry as io.github.melhzy/pubmed-stream.

Fixed

• The docs and pubmed-stream mcp --help register the server by hand with claude mcp add --scope user; without --scope user, Claude Code loads it only in the folder where you ran the command.
• init decides whether the Claude Code plugin is on as Claude Code does, one plugin id at a time across the user, project and local settings: a disabled copy of your own no longer hides a copy synced from claude.ai, and a synced copy counts only where Claude Code would load it, so init no longer removes a folder's server in a session that signs in with an API key, a token, Bedrock or Vertex.
• The server's instructions and AGENTS.md no longer tell the assistant to prefer pubmed-stream over other PubMed tools, as Anthropic's directory policy asks; they say what it does differently, and the researcher chooses.
• The chat of the Claude desktop app can use pubmed-stream once the server is added to the app's configuration: tutorial 7's new option C shows how, and the docs no longer say that the chat cannot.
• Troubleshooting checks that the plugin is installed and enabled, not only listed, before blaming uv, and the plugin's README gives the install command for a terminal too.

Upgrade: pip install --upgrade pubmed-stream. Plugin users get it with their next plugin update.