pnpm 12.13.0 on Node.js NPM

This release adds the pnpm profile and pnpm token commands, the storeIndexFormat: files setting for stores shared over a network filesystem, and faster Python dependency resolution.

Minor Changes

Added the pnpm profile command to view and update registry user profile settings.
Added pnpm token to list, create, and revoke authentication tokens on the registry.
Added the storeIndexFormat setting. Set it to files to keep a store's package index as one file per package instead of the SQLite index.db, for a store on a network filesystem that several machines use at once. SQLite's locking does not work across machines, so concurrent installs on such a store could corrupt index.db.
Added the nodePackageMap setting, which groups the package-map settings. nodePackageMap.mode: write-only writes node_modules/.package-map.json for other tools without making Node.js load it. mode: load also makes Node.js load the map, like nodeExperimentalPackageMap: true. nodePackageMap.type replaces nodePackageMapType. The old settings still work #14937.
```
nodePackageMap:
  mode: write-only
  type: loose
```

Patch Changes

Setting up pnpm

pnpm setup now works when pnpm was installed with npm on macOS. It installed pnpm from npm's bin directory and left a $PNPM_HOME/bin/pnpm that could not run #16855.
pnpm runs again after pnpm setup when globalShims enables pnpm. Every command failed with "the global target of the pnpm shim points back at the shim" #16874.
A pnpm built for the MinGW target on Windows, such as the MSYS2 package, now installs the MinGW Rust toolchain that rust-toolchain.toml names. It used to install the MSVC toolchain.

Installing packages

On macOS, pnpm install no longer fails with ERR_PNPM_LOCKFILE_WRITE_FILE when the project is on a virtiofs or SMB share. pnpm now falls back to a regular fsync when the file system rejects a full sync #16846.
On macOS, pnpm install, pnpm patch-commit, and other commands that load a pnpmfile no longer hang at random.
pnpm install now puts the executables of a Python build backend's requirements on the PATH while the backend runs. Projects built with uv_build now install. Before, they failed with "uv-build was not properly installed".
Removing a link: dependency now also removes its symlink from node_modules when nodeLinker is hoisted #16884.
pnpm-lock.yaml no longer records the tarball URL of a package installed from a scoped registry, such as one set by @types:registry=, when pnpm can rebuild the URL from that registry #16866.

Packing, auditing, and pipelines

pnpm pack and pnpm publish now pack only package.json, the README, the license, and the files named in main and bin when files is an empty array. They used to pack every file in the package #16889.
pnpm audit and pnpm audit signatures no longer check runtimes installed through devEngines.runtime, such as node@runtime:24.21.0, against the npm package of the same name. pnpm audit signatures reported these runtimes as having an invalid registry signature #16869.
pnpm pipeline now runs the root's tasks when pnpm-workspace.yaml lists only the root in packages or omits packages, as pnpm -r run does. A change to a root file in such a workspace no longer triggers a full-run warning. When a full run has no projects to run, pnpm pipeline now reports that no projects are selected #16849.

Performance

pnpm install resolves Python dependencies faster. With --lockfile-only, a project with 10 dependencies now resolves in about 4 seconds, down from about 40. When the index publishes a metadata file beside each wheel (PEP 658), as PyPI does, pnpm downloads only the wheels of the releases it selects.
A repeat install against an existing lockfile no longer reads registry metadata for the dependencies it takes from that lockfile. On a warm store this removes thousands of metadata lookups from a repeat install of a large workspace.
pnpm install with enableModulesDir: false now verifies the packages already in the store while the dependencies resolve, and checks a package's files in parallel. On a 5,100-package install with the store on a network filesystem, this removed a 19-second pause between resolution and fetching.