macos 13 github-runner - installing groff fails to install python3.11 and 3.12 #5199

mgood7123 · 2024-03-13T11:39:21Z

mgood7123
Mar 13, 2024

Output of `brew config`

HOMEBREW_VERSION: 4.2.9
ORIGIN: https://github.com/Homebrew/brew
HEAD: e5fefd73cd97cd36ae3af29551f529ae59b333d6
Last commit: 3 weeks ago
Core tap HEAD: 7987fb379ba90bbd265cb5b41db8086a5e233d39
Core tap last commit: 3 weeks ago
Core cask tap HEAD: 10b89b8ddeac7513b77c0d19afe6b759146b6d65
Core cask tap last commit: 3 weeks ago
HOMEBREW_PREFIX: /usr/local
HOMEBREW_CASK_OPTS: ["--no-quarantine"]
HOMEBREW_COLOR: set
HOMEBREW_MAKE_JOBS: 4
HOMEBREW_NO_AUTO_UPDATE: set
HOMEBREW_NO_INSTALL_CLEANUP: set
Homebrew Ruby: 3.1.4 => /usr/local/Homebrew/Library/Homebrew/vendor/portable-ruby/3.1.4/bin/ruby
CPU: quad-core 64-bit ivybridge
Clang: 15.0.0 build 1500
Git: 2.43.2 => /usr/local/bin/git
Curl: 8.4.0 => /usr/bin/curl
macOS: 13.6.4-x86_64
CLT: 15.1.0.0.1.1700200546
Xcode: 15.0.1 => /Applications/Xcode_15.0.1.app/Contents/Developer

Output of `brew doctor`

Please note that these warnings are just used to help the Homebrew maintainers
with debugging if you file an issue. If everything you use Homebrew for is
working fine: please don't worry or file an issue; just ignore this. Thanks!

Warning: Some installed formulae are deprecated or disabled.
You should find replacements for the following formulae:
  [email protected]
  packer

Warning: You have an unnecessary local Cask tap.
This can cause problems installing up-to-date casks.
Please remove it by running:
  brew untap homebrew/cask

Warning: You have an unnecessary local Core tap!
This can cause problems installing up-to-date formulae.
Please remove it by running:
 brew untap homebrew/core

Description of issue

brew install groff
==> Downloading https://ghcr.io/v2/homebrew/core/groff/manifests/1.23.0
==> Fetching dependencies for groff: jbig2dec, libidn, openjpeg, ghostscript, jasper, netpbm, libpaper, [email protected], psutils and uchardet

...

==> Downloading https://ghcr.io/v2/homebrew/core/python/3.12/manifests/3.12.2_1
==> Fetching [email protected]
==> Downloading https://ghcr.io/v2/homebrew/core/python/3.12/blobs/sha256:2b8cefc95067f3232cbf8b8c0c9df11b040923e12e0308f5102f237f82372710

...

==> Installing groff dependency: [email protected]
==> Downloading https://ghcr.io/v2/homebrew/core/python/3.12/manifests/3.12.2_1
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/db6a7027cff95a641d6d0c07e00f7b8fa26b0733b6d215c3752b745a381ebcb8--python@3.12-3.12.2_1.bottle_manifest.json
==> Pouring [email protected]_1.ventura.bottle.tar.gz
Error: The `brew link` step did not complete successfully
The formula built, but is not symlinked into /usr/local
Could not symlink bin/2to3
Target /usr/local/bin/2to3
already exists. You may want to remove it:
  rm '/usr/local/bin/2to3'
To force the link and overwrite all conflicting files:
  brew link --overwrite [email protected]
To list all files that would be deleted:
  brew link --overwrite --dry-run [email protected]
Possible conflicting files are:
/usr/local/bin/2to3 -> /Library/Frameworks/Python.framework/Versions/3.12/bin/2to3
/usr/local/bin/2to3-3.12 -> /Library/Frameworks/Python.framework/Versions/3.12/bin/2to3-3.12
/usr/local/bin/idle3 -> /Library/Frameworks/Python.framework/Versions/3.12/bin/idle3
/usr/local/bin/idle3.12 -> /Library/Frameworks/Python.framework/Versions/3.12/bin/idle3.12
/usr/local/bin/pydoc3 -> /Library/Frameworks/Python.framework/Versions/3.12/bin/pydoc3
/usr/local/bin/pydoc3.12 -> /Library/Frameworks/Python.framework/Versions/3.12/bin/pydoc3.12
/usr/local/bin/python3 -> /Library/Frameworks/Python.framework/Versions/3.12/bin/python3
/usr/local/bin/python3-config -> /Library/Frameworks/Python.framework/Versions/3.12/bin/python3-config
/usr/local/bin/python3.12 -> /Library/Frameworks/Python.framework/Versions/3.12/bin/python3.12
/usr/local/bin/python3.12-config -> /Library/Frameworks/Python.framework/Versions/3.12/bin/python3.12-config
/usr/local/share/man/man1/python3.1 -> /usr/local/Cellar/[email protected]/3.11.7_1/share/man/man1/python3.1
/usr/local/lib/pkgconfig/python3-embed.pc -> /usr/local/Cellar/[email protected]/3.11.7_1/lib/pkgconfig/python3-embed.pc
/usr/local/lib/pkgconfig/python3.pc -> /usr/local/Cellar/[email protected]/3.11.7_1/lib/pkgconfig/python3.pc
/usr/local/Frameworks/Python.framework/Headers -> /usr/local/Cellar/[email protected]/3.11.7_1/Frameworks/Python.framework/Headers
/usr/local/Frameworks/Python.framework/Python -> /usr/local/Cellar/[email protected]/3.11.7_1/Frameworks/Python.framework/Python
/usr/local/Frameworks/Python.framework/Resources -> /usr/local/Cellar/[email protected]/3.11.7_1/Frameworks/Python.framework/Resources
/usr/local/Frameworks/Python.framework/Versions/Current -> /usr/local/Cellar/[email protected]/3.11.7_1/Frameworks/Python.framework/Versions/Current
==> /usr/local/Cellar/[email protected]/3.12.2_1/bin/python3.12 -Im ensurepip
==> /usr/local/Cellar/[email protected]/3.12.2_1/bin/python3.12 -Im pip install -v --n
==> Summary
🍺  /usr/local/Cellar/[email protected]/3.12.2_1: 3,237 files, 63.6MB

...

==> Upgrading 14 dependents of upgraded formulae:
Disable this behaviour by setting HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK.
Hide these hints with HOMEBREW_NO_ENV_HINTS (see `man brew`).
cfn-lint 0.85.0 -> 0.86.0, cookiecutter 2.5.0 -> 2.6.0, aws-sam-cli 1.108.0 -> 1.111.0, azure-cli 2.56.0 -> 2.58.0, composer 2.6.6 -> 2.7.2, gnupg 2.4.4 -> 2.4.5, harfbuzz 8.3.0 -> 8.3.0_1, jpeg-xl 0.9.1 -> 0.10.2, kotlin 1.9.22 -> 1.9.23, libavif 1.0.3 -> 1.0.4, sqlite 3.45.1 -> 3.45.2, php 8.3.2 -> 8.3.3_1, [email protected] 3.11.7_1 -> 3.11.8, selenium-server 4.17.0 -> 4.18.1

...

==> Downloading https://ghcr.io/v2/homebrew/core/python/3.11/manifests/3.11.8
==> Downloading https://ghcr.io/v2/homebrew/core/azure-cli/manifests/2.58.0
==> Fetching dependencies for azure-cli: [email protected]
==> Downloading https://ghcr.io/v2/homebrew/core/python/3.11/manifests/3.11.8
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/eb6ea31a437458e84f35528d6cdf4604a244c9e3ff2f4cbd052bd7e6cabdbd50--python@3.11-3.11.8.bottle_manifest.json
==> Fetching [email protected]
==> Downloading https://ghcr.io/v2/homebrew/core/python/3.11/blobs/sha256:c0062822ceb061233f1f2eecae1c4a24aa6cebc8ca2f5488a57552a91575f02a

...

==> Upgrading azure-cli
  2.56.0 -> 2.58.0 

==> Installing dependencies for azure-cli: [email protected]
==> Installing azure-cli dependency: [email protected]
==> Downloading https://ghcr.io/v2/homebrew/core/python/3.11/manifests/3.11.8
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/eb6ea31a437458e84f35528d6cdf4604a244c9e3ff2f4cbd052bd7e6cabdbd50--python@3.11-3.11.8.bottle_manifest.json
==> Pouring [email protected]
Error: The `brew link` step did not complete successfully
The formula built, but is not symlinked into /usr/local
Could not symlink bin/2to3-3.11
Target /usr/local/bin/2to3-3.11
already exists. You may want to remove it:
  rm '/usr/local/bin/2to3-3.11'
To force the link and overwrite all conflicting files:
  brew link --overwrite [email protected]
To list all files that would be deleted:
  brew link --overwrite --dry-run [email protected]
Possible conflicting files are:
/usr/local/bin/2to3-3.11 -> /Library/Frameworks/Python.framework/Versions/3.11/bin/2to3-3.11
/usr/local/bin/idle3.11 -> /Library/Frameworks/Python.framework/Versions/3.11/bin/idle3.11
/usr/local/bin/pydoc3.11 -> /Library/Frameworks/Python.framework/Versions/3.11/bin/pydoc3.11
/usr/local/bin/python3.11 -> /Library/Frameworks/Python.framework/Versions/3.11/bin/python3.11
/usr/local/bin/python3.11-config -> /Library/Frameworks/Python.framework/Versions/3.11/bin/python3.11-config
==> /usr/local/Cellar/[email protected]/3.11.8/bin/python3.11 -Im ensurepip
==> /usr/local/Cellar/[email protected]/3.11.8/bin/python3.11 -Im pip install -v --no-
==> Summary
🍺  /usr/local/Cellar/[email protected]/3.11.8: 3,296 files, 61.4MB

Relevant casks

groff

ZhongRuoyu · 2024-03-13T11:42:41Z

ZhongRuoyu
Mar 13, 2024

Is this in GitHub Actions? If so, please see Homebrew/homebrew-core#165793 (comment).

3 replies

mgood7123 Mar 13, 2024
Author

hmm ill try that

          # macos-12 has groff however it also has 63 GB storage, this does not meet our needs so upgrade to 13 and 14
          # 
          # Filesystem       Size   Used  Avail Capacity iused      ifree %iused  Mounted on
          # /dev/disk1s5s1  380Gi   14Gi  154Gi     9%  553830 3981986570    0%   /   # macos 11 (Intel)
          # /dev/disk1s5s1  300Gi   14Gi   63Gi    19%  502376  665033400    0%   /   # macos 12 (Intel)
          # /dev/disk1s5s1  300Gi  8.7Gi  152Gi     6%  356810 1590762200    0%   /   # macos 13 (Intel)
          # /dev/disk3s1s1  295Gi  9.4Gi  153Gi     6%    394k       1.6G    0%   /   # macos 14 (M1)

          - os: macos-13
            name: macos-intel
            install_groff: export HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK=1; brew list -1 | grep python | while read formula; do brew unlink $formula; brew link --overwrite $formula; done; brew install groff
          - os: macos-14
            name: macos-m1
            install_groff: HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK=1 brew install groff

==> Installing groff dependency: libpaper
==> Downloading https://ghcr.io/v2/homebrew/core/libpaper/manifests/2.2.5
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/42578b6f8a9ee04dd82acaf721105148ed5ff4d5f5d44842bf6fccf6eb2fcec7--libpaper-2.2.5.bottle_manifest.json
==> Pouring libpaper--2.2.5.ventura.bottle.tar.gz
🍺  /usr/local/Cellar/libpaper/2.2.5: 19 files, 244.5KB
==> Installing groff dependency: [email protected]
==> Downloading https://ghcr.io/v2/homebrew/core/python/3.12/manifests/3.12.2_1
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/db6a7027cff95a641d6d0c07e00f7b8fa26b0733b6d215c3752b745a381ebcb8--python@3.12-3.12.2_1.bottle_manifest.json
==> Pouring [email protected]_1.ventura.bottle.tar.gz
Warning: These files were overwritten during the `brew link` step:
/usr/local/bin/2to3
/usr/local/bin/idle3
/usr/local/bin/pydoc3
/usr/local/bin/python3
/usr/local/bin/python3-config
/usr/local/share/man/man1/python3.1
/usr/local/lib/pkgconfig/python3-embed.pc
/usr/local/lib/pkgconfig/python3.pc
/usr/local/Frameworks/Python.framework/Headers
/usr/local/Frameworks/Python.framework/Python
/usr/local/Frameworks/Python.framework/Resources
/usr/local/Frameworks/Python.framework/Versions/Current
They have been backed up to: /Users/runner/Library/Caches/Homebrew/Backup
==> /usr/local/Cellar/[email protected]/3.12.2_1/bin/python3.12 -Im ensurepip
==> /usr/local/Cellar/[email protected]/3.12.2_1/bin/python3.12 -Im pip install -v --n
Warning: HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK is set: not checking for outdated
🍺  /usr/local/Cellar/groff/1.23.0: 637 files, 32.3MB
dependents or dependents with broken linkage!

do note that macos-14 does not seem to require this

(also brew config reports its m1 cpu as CPU: 3-core 64-bit dunno :D )


Run HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK=1 brew install groff
==> Downloading https://ghcr.io/v2/homebrew/core/groff/manifests/1.23.0
==> Fetching dependencies for groff: jbig2dec, libidn, openjpeg, ghostscript, jasper, netpbm, libpaper, psutils and uchardet
==> Downloading https://ghcr.io/v2/homebrew/core/jbig2dec/manifests/0.20
==> Fetching jbig2dec
==> Downloading https://ghcr.io/v2/homebrew/core/jbig2dec/blobs/sha256:30f0053c48d777cdbf482bcffeb449fe173e3471e344c97bc129b8fe2f883629
==> Downloading https://ghcr.io/v2/homebrew/core/libidn/manifests/1.42
==> Fetching libidn
==> Downloading https://ghcr.io/v2/homebrew/core/libidn/blobs/sha256:d342445da0046d7c00011f2ae04869066359318d77d24a9eeca8117436c0436c
==> Downloading https://ghcr.io/v2/homebrew/core/openjpeg/manifests/2.5.0_1
==> Fetching openjpeg
==> Downloading https://ghcr.io/v2/homebrew/core/openjpeg/blobs/sha256:51f1c5ccf3da558ed5ada2892dc6375faa5eb9cacbe086186aa9b4ecf5483f0c
==> Downloading https://ghcr.io/v2/homebrew/core/ghostscript/manifests/10.02.1
==> Fetching ghostscript
==> Downloading https://ghcr.io/v2/homebrew/core/ghostscript/blobs/sha256:40d5580ead459aefe68afa9598cf9a78b2986728b1facd65197dee6d515bb89b
==> Downloading https://ghcr.io/v2/homebrew/core/jasper/manifests/4.1.2
==> Fetching jasper
==> Downloading https://ghcr.io/v2/homebrew/core/jasper/blobs/sha256:7449ea338eac0a4f131ecfa103dd7ff72065952e69da7f968f2018d07f382154
==> Downloading https://ghcr.io/v2/homebrew/core/netpbm/manifests/11.02.07
==> Fetching netpbm
==> Downloading https://ghcr.io/v2/homebrew/core/netpbm/blobs/sha256:cd8a19ee2c8e22c28684b49bf64a451c26d916f61b919d86ca33de94678a39bd
==> Downloading https://ghcr.io/v2/homebrew/core/libpaper/manifests/2.1.2
==> Fetching libpaper
==> Downloading https://ghcr.io/v2/homebrew/core/libpaper/blobs/sha256:40d5e57b61b3606c26e76611ebc7dd719072b0f9d0e783730d2b475b419fca29
==> Downloading https://ghcr.io/v2/homebrew/core/psutils/manifests/3.3.2-1
==> Fetching psutils
==> Downloading https://ghcr.io/v2/homebrew/core/psutils/blobs/sha256:8bdc4453807c4ed3b080777b885e659276cc38fa010ea9285e1416333df88766
==> Downloading https://ghcr.io/v2/homebrew/core/uchardet/manifests/0.0.8
==> Fetching uchardet
==> Downloading https://ghcr.io/v2/homebrew/core/uchardet/blobs/sha256:70b2c779c315b71c067c8f4a743a90688dfa329c9d5e1c174345d0071fdf09d8
==> Fetching groff
==> Downloading https://ghcr.io/v2/homebrew/core/groff/blobs/sha256:ce07a3e98fa6cfff23826e993d638c12f833b9fb5fc9c2a3593364b0be162031
==> Installing dependencies for groff: jbig2dec, libidn, openjpeg, ghostscript, jasper, netpbm, libpaper, psutils and uchardet
==> Installing groff dependency: jbig2dec
==> Downloading https://ghcr.io/v2/homebrew/core/jbig2dec/manifests/0.20
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/8d21a0eddc94902acc1bb126cf78e775c7b2381f25532e02a7f9e2974a817577--jbig2dec-0.20.bottle_manifest.json
==> Pouring jbig2dec--0.20.arm64_sonoma.bottle.tar.gz
🍺  /opt/homebrew/Cellar/jbig2dec/0.20: 13 files, 422.7KB
==> Installing groff dependency: libidn
==> Downloading https://ghcr.io/v2/homebrew/core/libidn/manifests/1.42
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/786bf942d09cb90f8745be7db019bfd8ba760f0bf109f78bb1b787d5ab7490db--libidn-1.42.bottle_manifest.json
==> Pouring libidn--1.42.arm64_sonoma.bottle.tar.gz
🍺  /opt/homebrew/Cellar/libidn/1.42: 73 files, 1MB
==> Installing groff dependency: openjpeg
==> Downloading https://ghcr.io/v2/homebrew/core/openjpeg/manifests/2.5.0_1
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/d3acfd3e45dc08593423b30691238e57dfba97ca41463eae5b4d04ffc9a6e1c5--openjpeg-2.5.0_1.bottle_manifest.json
==> Pouring openjpeg--2.5.0_1.arm64_sonoma.bottle.tar.gz
🍺  /opt/homebrew/Cellar/openjpeg/2.5.0_1: 541 files, 13.9MB
==> Installing groff dependency: ghostscript
==> Downloading https://ghcr.io/v2/homebrew/core/ghostscript/manifests/10.02.1
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/ba9df8e1faa9473b0bc519feae603accbf1d5a1029326f3e721b9160e23c41be--ghostscript-10.02.1.bottle_manifest.json
==> Pouring ghostscript--10.02.1.arm64_sonoma.bottle.tar.gz
🍺  /opt/homebrew/Cellar/ghostscript/10.02.1: 639 files, 151.3MB
==> Installing groff dependency: jasper
==> Downloading https://ghcr.io/v2/homebrew/core/jasper/manifests/4.1.2
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/520da00e71e699cd4824fa9fccf56cfff2bcbdf176b7b37235650057f74ab49d--jasper-4.1.2.bottle_manifest.json
==> Pouring jasper--4.1.2.arm64_sonoma.bottle.tar.gz
🍺  /opt/homebrew/Cellar/jasper/4.1.2: 44 files, 1.6MB
==> Installing groff dependency: netpbm
==> Downloading https://ghcr.io/v2/homebrew/core/netpbm/manifests/11.02.07
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/12072ebc255d39227a3ceadd8252e55f67e4b1efa03e0ed0b7e07c4a24a010f8--netpbm-11.02.07.bottle_manifest.json
==> Pouring netpbm--11.02.07.arm64_sonoma.bottle.tar.gz
🍺  /opt/homebrew/Cellar/netpbm/11.02.07: 416 files, 18.7MB
==> Installing groff dependency: libpaper
==> Downloading https://ghcr.io/v2/homebrew/core/libpaper/manifests/2.1.2
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/d017fb05b156a548d5d4f7abf7224da9862fedb40bb55c28cb2e237b877d66a7--libpaper-2.1.2.bottle_manifest.json
==> Pouring libpaper--2.1.2.arm64_sonoma.bottle.tar.gz
🍺  /opt/homebrew/Cellar/libpaper/2.1.2: 17 files, 265.2KB
==> Installing groff dependency: psutils
==> Downloading https://ghcr.io/v2/homebrew/core/psutils/manifests/3.3.2-1
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/1b7477ce0d7c3f0d3e83c852e51fc61a618d387e2753255ccd1e1a5fd5eb1522--psutils-3.3.2-1.bottle_manifest.json
==> Pouring psutils--3.3.2.arm64_sonoma.bottle.1.tar.gz
🍺  /opt/homebrew/Cellar/psutils/3.3.2: 126 files, 1.4MB
==> Installing groff dependency: uchardet
==> Downloading https://ghcr.io/v2/homebrew/core/uchardet/manifests/0.0.8
Already downloaded: /Users/runner/Library/Caches/Homebrew/downloads/37b3de4d13c09c3d82538e234ab5da0b279d7c244141bce073d16baa75b483a5--uchardet-0.0.8.bottle_manifest.json
==> Pouring uchardet--0.0.8.arm64_sonoma.bottle.tar.gz
🍺  /opt/homebrew/Cellar/uchardet/0.0.8: 17 files, 654.4KB
==> Installing groff
==> Pouring groff--1.23.0.arm64_sonoma.bottle.tar.gz
🍺  /opt/homebrew/Cellar/groff/1.23.0: 637 files, 32.2MB
Warning: HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK is set: not checking for outdated
dependents or dependents with broken linkage!

ZhongRuoyu Mar 13, 2024

If you were concerned about this:

Warning: These files were overwritten during the `brew link` step:
/usr/local/bin/2to3
/usr/local/bin/idle3
/usr/local/bin/pydoc3
/usr/local/bin/python3
/usr/local/bin/python3-config
/usr/local/share/man/man1/python3.1
/usr/local/lib/pkgconfig/python3-embed.pc
/usr/local/lib/pkgconfig/python3.pc
/usr/local/Frameworks/Python.framework/Headers
/usr/local/Frameworks/Python.framework/Python
/usr/local/Frameworks/Python.framework/Resources
/usr/local/Frameworks/Python.framework/Versions/Current

This is okay. The overwrite of the links are just an indication of [email protected] having taken precedence and become the default python version.

do note that macos-14 does not seem to require this

Yes, because macos-14 is arm64 and the workaround is only needed for x86_64. Also note that the x86_64 workaround you posted would probably result in some other formulae being re-linked unnecessarily (although it should work too). Simply re-linking python should already be sufficient:

        run: |
          # Workaround GitHub Actions Python issues
          brew unlink python && brew link --overwrite python

https://github.com/Homebrew/brew/blob/58b84c3979a9da6060cb03744b804e623c5af6dd/.github/workflows/tests.yml#L353-L355

tigercosmos Mar 14, 2024

also encountered issues while installing [email protected]
brew list -1 | grep python | while read formula; do brew unlink $formula; brew link --overwrite $formula; done; seems work for me.

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Homebrew

macos 13 github-runner - installing groff fails to install python3.11 and 3.12 #5199

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Homebrew

macos 13 github-runner - installing groff fails to install python3.11 and 3.12 #5199

mgood7123 Mar 13, 2024

Output of brew config

Output of brew doctor

Description of issue

Relevant casks

Replies: 1 comment · 3 replies

ZhongRuoyu Mar 13, 2024

mgood7123 Mar 13, 2024 Author

ZhongRuoyu Mar 13, 2024

tigercosmos Mar 14, 2024

mgood7123
Mar 13, 2024

Output of `brew config`

Output of `brew doctor`

Replies: 1 comment 3 replies

ZhongRuoyu
Mar 13, 2024

mgood7123 Mar 13, 2024
Author