orthofinder and MCL (markov clustering) does not compile on M1

[stephrom]

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• [ x] Confirmed this is a problem with brew installing one, specific formula and not every time you run brew? If it's a general brew problem please file this issue at https://github.com/Homebrew/brew/issues/new.
• [x ] Ran brew update and retried your prior step?
• [ ] Ran brew doctor, fixed all issues and retried your prior step?
• [ ] Ran brew gist-logs <formula> (where <formula> is the name of the formula that failed) and included the output link?
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To help us debug your issue please explain:

• What you were trying to do (and why) I'm trying to install orthofinder locally on a Macbook pro M1. All dependencies (diamond, fastme) if installed separately works fine, except MCL. The diamond and fastme that were installed with orthofinder were pre-compiled executables that didn't work. Creating softlinks pointing to the pre-installed, independently, solved the issue. Except for mcl.
• What happened (include command output) brew install mcl ==> Downloading https://formulae.brew.sh/api/formula.jws.json ########################################################################################################################################### 100.0% ==> Downloading https://formulae.brew.sh/api/cask.jws.json ########################################################################################################################################### 100.0% ==> Fetching brewsci/bio/mcl ==> Downloading https://micans.org/mcl/src/mcl-14-137.tar.gz Already downloaded: /Users/strom/Library/Caches/Homebrew/downloads/2270c1e35b168dd765d6a0cec7fcbe7de4f6a0f971073bf1caa3e3d44737d6cb--mcl-14-137.tar.gz ==> Installing mcl from brewsci/bio ==> ./configure --enable-blast Last 15 lines from /Users/strom/Library/Logs/Homebrew/mcl/01.configure: checking float.h presence... yes checking for float.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking malloc.h usability... no checking malloc.h presence... no checking for malloc.h... no checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking for size_t... yes checking build system type... configure: error: /bin/sh autofoo/config.sub -apple-darwin23.5.0 failed configure: WARNING: cache variable ac_cv_build contains a newline

If reporting this issue please do so at (not Homebrew/brew or Homebrew/homebrew-core): https://github.com/brewsci/homebrew-bio/issues

• What you expected to happen
• Step-by-step reproduction instructions (by running brew install commands)

downloading the original : wget https://www.micans.org/mcl/src/mcl-22-282.tar.gz setenv CC /opt/homebrew/bin/gcc setenv CPATH /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include

./configure checking for a BSD-compatible install... /opt/local/bin/ginstall -c checking whether build environment is sane... yes /Users/strom/Downloads/mcl-22-282/autofoo/missing: Unknown --is-lightweight' option Try /Users/strom/Downloads/mcl-22-282/autofoo/missing --help' for more information configure: WARNING: 'missing' script is too old or missing checking for a thread-safe mkdir -p... /opt/local/bin/gmkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether to enable maintainer-specific portions of Makefiles... no checking whether make supports the include directive... yes (GNU style) checking for gcc... /opt/homebrew/bin/gcc checking whether the C compiler works... no configure: error: in /Users/strom/Downloads/mcl-22-282': configure: error: C compiler cannot create executables See config.log' for more details

Formula additions or changes

There is an issue compiling the code. I guess the same happens when installing from brew

To get formulae added or changed in Brewsci/bio please file a Pull Request. config.log