Linux - Fail to install binutils 2.45 on AlmaLinux 9.5

[monodera]

Additional Info

• I am using Windows Subsystem for Linux

Output of brew config

HOMEBREW_VERSION: 4.6.11
ORIGIN: https://github.com/Homebrew/brew
HEAD: 6c44d1a8f1bd7ca44c3f13c4e3694cdff40483a2
Last commit: 4 days ago
Branch: stable
Core tap JSON: 18 Sep 23:55 UTC
HOMEBREW_PREFIX: /home/monodera/.linuxbrew
HOMEBREW_REPOSITORY: /home/monodera/.linuxbrew
HOMEBREW_CELLAR: /home/monodera/.linuxbrew/Cellar
HOMEBREW_CASK_OPTS: []
HOMEBREW_EDITOR: nano
HOMEBREW_FORBID_PACKAGES_FROM_PATHS: set
HOMEBREW_MAKE_JOBS: 128
Homebrew Ruby: 3.4.5 => /home/monodera/.linuxbrew/Library/Homebrew/vendor/portable-ruby/3.4.5/bin/ruby
CPU: 128-core 64-bit zen2
Clang: N/A
Git: 2.43.5 => /bin/git
Curl: 7.76.1 => /bin/curl
Kernel: Linux 5.14.0-503.35.1.el9_5.x86_64 x86_64 GNU/Linux
OS: AlmaLinux 9.5 (Teal Serval)
Host glibc: 2.34
Host libstdc++: 6.0.29
/usr/bin/gcc: 11.5.0
/usr/bin/ruby: N/A
glibc: 2.35_1
gcc@11: N/A
gcc: N/A
xorg: N/A

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: Unbrewed header files were found in /usr/local/include.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae and may need to be deleted.

Unexpected header files:
  /usr/local/include/cfortran.h
  /usr/local/include/drvrsmem.h
  /usr/local/include/f77_wrap.h
  /usr/local/include/fitsio.h
  /usr/local/include/fitsio2.h
  /usr/local/include/longnam.h
  /usr/local/include/region.h

Warning: Unbrewed '.la' files were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae and may need to be deleted.

Unexpected '.la' files:
  /usr/local/lib/libcfitsio.la

Warning: Unbrewed '.pc' files were found in /usr/local/lib/pkgconfig.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae and may need to be deleted.

Unexpected '.pc' files:
  /usr/local/lib/pkgconfig/cfitsio.pc

Warning: Unbrewed static libraries were found in /usr/local/lib.
If you didn't put them there on purpose they could cause problems when
building Homebrew formulae and may need to be deleted.

Unexpected static libraries:
  /usr/local/lib/libcfitsio.a

Warning: Your system glibc 2.34 is too old.
We will need to automatically install a newer version.

We recommend updating to a newer version via your distribution's
package manager, upgrading your distribution to the latest version,
or changing distributions.

This is a Tier 2 configuration:
  https://docs.brew.sh/Support-Tiers#tier-2
You can report Tier 2 unrelated issues to Homebrew/* repositories!
Read the above document instead before opening any issues or PRs.


Warning: Your Homebrew's prefix is not /home/linuxbrew/.linuxbrew.

Most of Homebrew's bottles (binary packages) can only be used with the default prefix.
Consider uninstalling Homebrew and reinstalling into the default prefix.

This is a Tier 3 configuration:
  https://docs.brew.sh/Support-Tiers#tier-3
You can report Tier 3 unrelated issues to Homebrew/* repositories!
Read the above document instead before opening any issues or PRs.

Description of issue

I'm using homebrew on AlmaLinux 9.5 which I don't have a permission for sudo. It failed to build binutils 2.45 while it worked with 2.44. It seems that gcc cannot find jni.h, but it is included in the search path as -I/usr/lib/jvm/java-11-openjdk-11.0.25.0.9-3.el9.x86_64/include. I tried to uninstall and reinstall homebrew, but still have the same issue. I'd like to know what can be done on my side. I may be able to ask the admin to install some missing system-wide packages, if any.

Here is a link to Gist generated by brew gist-logs binutils: https://gist.github.com/monodera/5755f3d9e06217546d4912ca3bd720d2

[ZhongRuoyu]

This is an issue with building gprofng. Homebrew's compiler shim strips out the include path for jni.h because it doesn't like to use system dependencies. Since it doesn't seem like there is an option to disable gprofng's Java profiling feature, please try this as a workaround:

brew tap --force homebrew/core
brew edit binutils  # apply the patch below
HOMEBREW_NO_INSTALL_FROM_API=1 brew install binutils

--- a/Formula/b/binutils.rb
+++ b/Formula/b/binutils.rb
@@ -34,6 +34,7 @@ class Binutils < Formula
     # Workaround https://sourceware.org/bugzilla/show_bug.cgi?id=28909
     touch "gas/doc/.dirstamp", mtime: Time.utc(2022, 1, 1)
     make_args = OS.mac? ? [] : ["MAKEINFO=true"] # for gprofng
+    inreplace "gprofng/configure", "enable_gprofng_jp=yes", "enable_gprofng_jp="
 
     args = [
       "--disable-debug",

Alternatively, if you don't need gprofng at all, you can also choose to apply the following instead:

--- a/Formula/b/binutils.rb
+++ b/Formula/b/binutils.rb
@@ -51,6 +51,7 @@ class Binutils < Formula
       "--with-system-zlib",
       "--with-zstd",
       "--disable-nls",
+      "--disable-gprofng",
     ]
     system "./configure", *args
     system "make", *make_args

[monodera]

Thanks! I applied the 1st option and it worked.