Bug 950205 – dev-python/scipy-1.15.2 can't crosscompile : fatal error: pybind11/pybind11.h: No such file or directory

• Status: UNCONFIRMED
• Product: Gentoo Linux

[Description Arniiiii 2025-02-23 20:46:06 UTC]

Created attachment 919778 [details]
build.log in `xz -9`

So, as attempt to get a progress with bug https://bugs.gentoo.org/950050 , I've got to this.

How:

1. Fix cross-pkg-config:
  Edit `/usr/bin/aarch64-unknown-linux-gnueabi-pkg-config` so that `PKG_CONFIG_PATH` is not `unset` : 

somewhere near line 180:
```
#
# Some distributions pollute the pkg-config environment.
# Time to pull a captain planet on them.
#
# unset PKG_CONFIG_PATH # <----------------------------- comment this line

```

2. Set PKG_CONFIG_PATH to a folder in which there's cross compiled numpy and in which numpy.pc:

PKG_CONFIG_PATH=/usr/aarch64-unknown-linux-gnueabi/usr/lib/python3.12/site-packages/numpy/_core/lib/pkgconfig/ 

3. Attempt to compile scipy in any way. My way:

`PKG_CONFIG_PATH=/usr/aarch64-unknown-linux-gnueabi/usr/lib/python3.12/site-packages/numpy/_core/lib/pkgconfig/ MAKEOPTS="-j24 -l24" FEATURES="parallel-fetch parallel-install"  aarch64-unknown-linux-gnueabi-emerge -avt -j1 -l24 dev-cpp/benchmark`

4. Get this:

```
FAILED: scipy/fft/_pocketfft/pypocketfft.cpython-312-x86_64-linux-gnu.so.p/pypocketfft.cxx.o
aarch64-unknown-linux-gnueabi-g++ -Iscipy/fft/_pocketfft/pypocketfft.cpython-312-x86_64-linux-gnu.so.p -Iscipy/fft/_pocketfft -I../scipy-1.15.2/scipy/fft/_pocketfft -I../scipy-1.15.2/scipy/_lib/pocketfft -I/usr/aarch64-unknown-linux-gnueabi/include -I/usr/aarch64-unknown-linux-gnueabi/usr/include/python3.12 -fvisibility=hidden -fvisibility-inlines-hidden -fdiagnostics-color=always -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -O2 -pipe -fomit-frame-pointer -DNDEBUG -fPIC -pthread -DPOCKETFFT_PTHREADS -DPOCKETFFT_CACHE_SIZE=16 -MD -MQ scipy/fft/_pocketfft/pypocketfft.cpython-312-x86_64-linux-gnu.so.p/pypocketfft.cxx.o -MF scipy/fft/_pocketfft/pypocketfft.cpython-312-x86_64-linux-gnu.so.p/pypocketfft.cxx.o.d -o scipy/fft/_pocketfft/pypocketfft.cpython-312-x86_64-linux-gnu.so.p/pypocketfft.cxx.o -c ../scipy-1.15.2/scipy/fft/_pocketfft/pypocketfft.cxx
../scipy-1.15.2/scipy/fft/_pocketfft/pypocketfft.cxx:16:10: fatal error: pybind11/pybind11.h: No such file or directory
   16 | #include <pybind11/pybind11.h>
      |          ^~~~~~~~~~~~~~~~~~~~~
compilation terminated.
```

[Comment 1 Arniiiii 2025-02-23 20:46:40 UTC]

Created attachment 919779 [details]
meson-logs.txt

[Comment 2 Arniiiii 2025-02-23 20:47:11 UTC]

Created attachment 919780 [details]
PORTAGE_CONFIGROOT=/usr/aarch64-unknown-linux-gnueabi/ emerge --info

[Comment 3 Arniiiii 2025-02-23 20:47:37 UTC]

Created attachment 919781 [details]
emerge --info

[Comment 4 Sam James 2025-02-23 20:50:35 UTC]

Is pybind11 installed either for CBUILD or CHOST?

Also, is it possible your workaround is actually causing a problem here (because it stops it finding pybind11 via usual means)?

[Comment 5 Arniiiii 2025-02-23 20:53:27 UTC]

(In reply to Sam James from comment #4)
> Is pybind11 installed either for CBUILD or CHOST?
> 
> Also, is it possible your workaround is actually causing a problem here
> (because it stops it finding pybind11 via usual means)?

it is installed on main system, so I guess it means on CBUILD it existed, but not at CHOST. Right now testing if installing for CHOST would fix it.

[Comment 6 Arniiiii 2025-02-23 21:02:29 UTC]

(In reply to Arniii from comment #5)

> Right now testing if installing for CHOST would fix it.

This fixed this point, but I still got to relocation problem like in https://bugs.gentoo.org/950050