Text files have overzealous prefix replacement, with no way to disable

[p-linnane]

brew doctor output

Your system is ready to brew.

Verification

• My "brew doctor output" above says Your system is ready to brew. and am still able to reproduce my issue.
• I ran brew update twice and am still able to reproduce my issue.
• This issue's title and/or description do not reference a single formula e.g. brew install wget. If they do, open an issue at https://github.com/Homebrew/homebrew-core/issues/new/choose instead.

brew config output

HOMEBREW_VERSION: 4.4.29-59-g7b34fcc
ORIGIN: https://github.com/Homebrew/brew
HEAD: 7b34fcc330801f31e204959d8e6371fb28957016
Last commit: 4 hours ago
Branch: master
Core tap HEAD: 027805772a784816d6bc8e9326df27b8a8634dde
Core tap last commit: 6 minutes ago
Core cask tap HEAD: 25076a3151a70449453597a7b5f9ac24f53a942c
Core cask tap last commit: 13 minutes ago
HOMEBREW_PREFIX: /opt/homebrew
HOMEBREW_CASK_OPTS: []
HOMEBREW_DEVELOPER: set
HOMEBREW_DISPLAY_INSTALL_TIMES: set
HOMEBREW_EDITOR: /opt/homebrew/bin/code
HOMEBREW_EVAL_ALL: set
HOMEBREW_FORCE_BREWED_CURL: set
HOMEBREW_FORCE_BREWED_GIT: set
HOMEBREW_LIVECHECK_AUTOBUMP: set
HOMEBREW_MAKE_JOBS: 14
HOMEBREW_NO_ENV_HINTS: set
HOMEBREW_NO_INSTALL_FROM_API: set
HOMEBREW_SORBET_RUNTIME: set
HOMEBREW_UPGRADE_GREEDY: set
HOMEBREW_VERIFY_ATTESTATIONS: set
Homebrew Ruby: 3.3.7 => /opt/homebrew/Library/Homebrew/vendor/portable-ruby/3.3.7/bin/ruby
CPU: 14-core 64-bit arm_palma
Clang: 17.0.0 build 1700
Git: 2.49.0 => /opt/homebrew/opt/git/bin/git
Curl: 8.13.0 => /opt/homebrew/opt/curl/bin/curl
macOS: 15.4-arm64
CLT: 16.3.0.0.1.1742442376
Xcode: 16.3
Rosetta 2: false

What were you trying to do (and why)?

An :all bottle should be created in Homebrew/homebrew-core#219712, but the publish job fails.

What happened (include all command output)?

langgraph-cli should have an `:all` bottle but one cannot be created:
[
  {
    "filename": "langgraph-cli-0.2.3.arm64_linux.bottle.tar.gz",
    "local_filename": "langgraph-cli--0.2.3.arm64_linux.bottle.tar.gz",
    "sha256": "7bbcc68ccbb42727271ce8ac41c4a2e7d9bca0a36d7885b2affe7fe8c3582f6b",
    "tab": {
      "homebrew_version": "4.4.29-59-g7b34fcc",
      "changed_files": [
        "libexec/bin/langgraph",
        "libexec/pyvenv.cfg"
      ],
      "source_modified_time": 0,
      "compiler": "gcc-11",
      "runtime_dependencies": [
        {
          "full_name": "mpdecimal",
          "version": "4.0.0",
          "revision": 0,
          "bottle_rebuild": 1,
          "pkg_version": "4.0.0",
          "declared_directly": false
        },
        {
          "full_name": "ca-certificates",
          "version": "2025-02-25",
          "revision": 0,
          "bottle_rebuild": 0,
          "pkg_version": "2025-02-25",
          "declared_directly": false
        },
        {
          "full_name": "openssl@3",
          "version": "3.4.1",
          "revision": 0,
          "bottle_rebuild": 0,
          "pkg_version": "3.4.1",
          "declared_directly": false
        },
        {
          "full_name": "ncurses",
          "version": "6.5",
          "revision": 0,
          "bottle_rebuild": 0,
          "pkg_version": "6.5",
          "declared_directly": false
        },
        {
          "full_name": "readline",
          "version": "8.2.13",
          "revision": 0,
          "bottle_rebuild": 0,
          "pkg_version": "8.2.13",
          "declared_directly": false
        },
        {
          "full_name": "zlib",
          "version": "1.3.1",
          "revision": 0,
          "bottle_rebuild": 0,
          "pkg_version": "1.3.1",
          "declared_directly": false
        },
        {
          "full_name": "sqlite",
          "version": "3.49.1",
          "revision": 0,
          "bottle_rebuild": 0,
          "pkg_version": "3.49.1",
          "declared_directly": false
        },
        {
          "full_name": "xz",
          "version": "5.8.1",
          "revision": 0,
          "bottle_rebuild": 0,
          "pkg_version": "5.8.1",
          "declared_directly": false
        },
        {
          "full_name": "bzip2",
          "version": "1.0.8",
          "revision": 0,
          "bottle_rebuild": 2,
          "pkg_version": "1.0.8",
          "declared_directly": false
        },
        {
          "full_name": "expat",
          "version": "2.7.1",
          "revision": 0,
          "bottle_rebuild": 0,
          "pkg_version": "2.7.1",
          "declared_directly": false
        },
        {
          "full_name": "libedit",
          "version": "20250104-3.1",
          "revision": 0,
          "bottle_rebuild": 0,
          "pkg_version": "20250104-3.1",
          "declared_directly": false
        },
        {
          "full_name": "libffi",
          "version": "3.4.8",
          "revision": 0,
          "bottle_rebuild": 0,
          "pkg_version": "3.4.8",
          "declared_directly": false
        },
        {
          "full_name": "unzip",
          "version": "6.0",
          "revision": 8,
          "bottle_rebuild": 0,
          "pkg_version": "6.0_8",
          "declared_directly": false
        },
        {
          "full_name": "berkeley-db@5",
          "version": "5.3.28",
          "revision": 1,
          "bottle_rebuild": 0,
          "pkg_version": "5.3.28_1",
          "declared_directly": false
        },
        {
          "full_name": "python@3.13",
          "version": "3.13.3",
          "revision": 0,
          "bottle_rebuild": 1,
          "pkg_version": "3.13.3",
          "declared_directly": true
        }
      ],
      "arch": "arm64",
      "built_on": {
        "os": "Linux",
        "os_version": "Ubuntu 22.04.5 LTS",
        "cpu_family": "arm",
        "glibc_version": "2.35",
        "oldest_cpu_family": "armv8"
      }
    },
    "path_exec_files": [
      "bin/langgraph"
    ],
    "all_files": [
      ".brew/langgraph-cli.rb",

Prefix replacement was found when diffing new bottles for macOS 15 x86_64 and arm64:

╰─ diffoscope bottles_15-arm64-14408349467/langgraph-cli--0.2.3.arm64_sequoia.bottle.tar.gz bottles_15-x86_64-14408349467/langgraph-cli--0.2.3.sequoia.bottle.tar.gz
--- bottles_15-arm64-14408349467/langgraph-cli--0.2.3.arm64_sequoia.bottle.tar.gz
+++ bottles_15-x86_64-14408349467/langgraph-cli--0.2.3.sequoia.bottle.tar.gz
│   --- langgraph-cli--0.2.3.arm64_sequoia.bottle.tar
├── +++ langgraph-cli--0.2.3.sequoia.bottle.tar
│ ├── file list
│ │ @@ -42,15 +42,15 @@
│ │  -rw-r--r--   0        0        0       82 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/click-8.1.8.dist-info/WHEEL
│ │  drwxr-xr-x   0        0        0        0 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/click-8.1.8.dist-info/licenses/
│ │  -rw-r--r--   0        0        0     1475 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/click-8.1.8.dist-info/licenses/LICENSE.txt
│ │  drwxr-xr-x   0        0        0        0 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/
│ │  -rw-r--r--   0        0        0        0 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/__init__.py
│ │  -rw-r--r--   0        0        0     2462 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/analytics.py
│ │  -rw-r--r--   0        0        0    22501 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/cli.py
│ │ --rw-r--r--   0        0        0    50966 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/config.py
│ │ +-rw-r--r--   0        0        0    51002 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/config.py
│ │  -rw-r--r--   0        0        0      362 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/constants.py
│ │  -rw-r--r--   0        0        0     8018 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/docker.py
│ │  -rw-r--r--   0        0        0     5205 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/exec.py
│ │  -rw-r--r--   0        0        0     1754 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/progress.py
│ │  -rw-r--r--   0        0        0        0 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/py.typed
│ │  -rw-r--r--   0        0        0     8761 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/templates.py
│ │  -rw-r--r--   0        0        0       98 1970-01-01 00:00:00.000000 langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/util.py
│ ├── langgraph-cli/0.2.3/libexec/lib/python3.13/site-packages/langgraph_cli/config.py
│ │ @@ -412,16 +412,16 @@
│ │  PIP_CLEANUP_LINES = """# -- Ensure user deps didn't inadvertently overwrite langgraph-api
│ │  RUN mkdir -p /api/langgraph_api /api/langgraph_runtime /api/langgraph_license && \
│ │      touch /api/langgraph_api/__init__.py /api/langgraph_runtime/__init__.py /api/langgraph_license/__init__.py
│ │  RUN PYTHONDONTWRITEBYTECODE=1 pip install --no-cache-dir --no-deps -e /api
│ │  # -- End of ensuring user deps didn't inadvertently overwrite langgraph-api --
│ │  # -- Removing pip from the final image ~<:===~~~ --
│ │  RUN pip uninstall -y pip setuptools wheel && \
│ │ -    rm -rf /usr/local/lib/python*/site-packages/pip* /usr/local/lib/python*/site-packages/setuptools* /usr/local/lib/python*/site-packages/wheel* && \
│ │ -    find /usr/local/bin -name "pip*" -delete
│ │ +    rm -rf @@HOMEBREW_PREFIX@@/lib/python*/site-packages/pip* @@HOMEBREW_PREFIX@@/lib/python*/site-packages/setuptools* @@HOMEBREW_PREFIX@@/lib/python*/site-packages/wheel* && \
│ │ +    find @@HOMEBREW_PREFIX@@/bin -name "pip*" -delete
│ │  # -- End of pip removal --"""
│ │
│ │
│ │  def _parse_version(version_str: str) -> tuple[int, int]:
│ │      """Parse a version string into a tuple of (major, minor)."""
│ │      try:
│ │          major, minor = map(int, version_str.split("-")[0].split("."))

What did you expect to happen?

An :all bottle is built merged.

Step-by-step reproduction instructions (by running brew commands)

Job logs: https://github.com/Homebrew/homebrew-core/actions/runs/14409600763/job/40414217704

[rafaelgallani]

howdy @MikeMcQuaid! can I try tackling this one? although I think my slim-to-none ruby knowledge might not be enough here.
plus I'm not super familiar with all of brew's mechanisms/internals - I'm more of a basic user, but if you think that's suitable/if there's any tip/advice/etc, I'd be happy to give it a shot.

[MikeMcQuaid]

@rafaelgallani never need to ask before tackling things so feel free.

The issue here is that /usr/local is being relocated incorrectly. Check keg_relocate.rb files and dev-cmd/bottle.rb for relevant files here

[xakep8]

is this issue fixed?

[MikeMcQuaid]

@xakep8 no

[rafaelgallani]

@xakep8 if possible I'd like to handle this one - I wasn't around these last days, as I'm still handling some outstanding issues from my previous employer, but I'll actively start to work on this one soon. Is that OK?

[p-linnane]

@rafaelgallani There are no open PR's for this, so please feel free to open one. No need to coordinate. No Homebrew maintainers are working on this.

[EncapsulatedSpyware]

You can assign me this issue ,I would be gratefull to solve issue.

[MikeMcQuaid]

@EncapsulatedSpyware again: not gonna assign you but feel free to open a PR.

[xakep8]

@MikeMcQuaid so what I can guess from the code base is that if I skip the relocation of bottles during the build_bottles for :all that should solve the problem for us right?

we already have a flag --skip-relocation we just have to mimic the process when it's an :all bottle