nextclade 1.2.3 (new formula)

[corneliusroemer]

• [x] Have you followed the guidelines for contributing?
• [x] Have you checked that there aren't other open pull requests for the same formula update/change?
• [x] Have you built your formula locally with brew install --build-from-source FORMULA, where FORMULA is the name of the formula you're submitting?
• [x] Does your build pass brew audit --strict FORMULA (after doing brew install FORMULA)?

---

This is my first foray into packaging with brew. Feedback welcome!

[sjackman]

The CI error /__w/homebrew-bio/homebrew-bio/.git: Permission denied is unrelated to your PR. I'll take a look at it just as soon as I can find some time. Thank you for your patience.

[corneliusroemer]

Thanks @sjackman! I figured out myself that this probably wasn't my PR and opened this issue for the root error: https://github.com/brewsci/homebrew-bio/issues/1395

[eseiler]

@corneliusroemer Can you rebase this on the current develop?

[corneliusroemer]

@eseiler Done! Someone needs to approve running workflows though, unfortunately. Maybe @sjackman @YoshitakaMo @jonchang @zbeekman? Not sure who has the rights.

[jonchang]

I've started CI checks on this. Note that you could probably just submit this to homebrew/core instead, as long as you provide a better test in the test do block.

[jonchang]

Try fails_with gcc: "5" for Linux.

[corneliusroemer]

When I try to build it locally in an Ubuntu docker image using brew install --build-from-source --verbose --debug nextclade.rb I get the following error:

/home/linuxbrew/.linuxbrew/Cellar/gcc/11.2.0/lib/gcc/11/gcc/x86_64-pc-linux-gnu/11.2.0/include/waitpkgintrin.h:53:1: error: inlining failed in call to 'always_inline' 'unsigned char _tpause(unsigned int, long long unsigned int)': target specific option mismatch
   53 | _tpause (unsigned int __A, unsigned long long __B)
      | ^~~~~~~

Not sure what's the problem since I can build it without brew just using make prod and there are no errors.

Any ideas?

[jonchang]

Not sure what's the problem since I can build it without brew just using make prod and there are no errors.

You're likely using a different compiler from your host environment than brew's compiler.

https://github.com/oneapi-src/oneTBB/issues/370

It is likely an issue in this dependency when compiling with gcc 11.

[corneliusroemer]

Thanks! I didn't find that bug. So I would have to tell brew that all but gcc 9 works - or at least that gcc@11 doesn't.

[jonchang]

Yes, you'll need to add a fails_with for gcc 11.

I also want to reiterate that you should submit this to https://github.com/homebrew/homebrew-core, since the CI resources there are better (including for ARM macOS) and that repository gets more visibility than this one.

[stale[bot]]

This issue has been automatically marked as stale because it has not had recent activity. It will be closed if no further activity occurs.