=> Bootstrap dependency digest>=20211023: found digest-20220214 => Checksum BLAKE2s OK for scipy-1.14.1.tar.gz => Checksum SHA512 OK for scipy-1.14.1.tar.gz ===> Installing dependencies for py313-scipy-1.14.1 ========================================================================== The following variables will affect the build process of this package, py313-scipy-1.14.1. Their current value is shown below: * PKGSRC_BLAS_TYPES = netlib openblas openblas_pthread openblas_openmp * PYTHON_VERSION_DEFAULT = 312 Based on these variables, the following variables have been set: * BLAS_INCLUDES = -I/usr/pkg/include/netlib * BLAS_LIBS = -lblas * BLAS_PC = blas * BLAS_TYPE = netlib * CBLAS_LIBS = -lcblas -lblas * CBLAS_PC = cblas * LAPACKE_LIBS = -llapacke -llapack -lblas * LAPACKE_PC = lapacke * LAPACK_LIBS = -llapack -lblas * LAPACK_PC = lapack * PYPACKAGE = python313 You may want to abort the process now with CTRL-C and change the value of variables in the first group before continuing. Be sure to run `/usr/bin/make clean' after the changes. ========================================================================== => Tool dependency py313-cython>=3.0.8: found py313-cython-3.0.11 => Tool dependency meson>=1.2.2nb1: found meson-1.6.0 => Tool dependency py313-meson_python>=0.15.0: found py313-meson_python-0.17.0 => Tool dependency py313-wheel-[0-9]*: found py313-wheel-0.44.0 => Tool dependency py313-pythran>=0.14.0: found py313-pythran-0.16.1 => Tool dependency py313-build>=0: found py313-build-1.2.2.post1 => Tool dependency py313-installer>=0.7.0nb1: found py313-installer-0.7.0nb1 => Tool dependency mktools-[0-9]*: found mktools-20220614 => Tool dependency pkgconf-[0-9]*: found pkgconf-2.3.0 => Tool dependency cwrappers>=20150314: found cwrappers-20220403 => Tool dependency checkperms>=1.1: found checkperms-1.12 => Build dependency gcc9>=9.5.0nb1: found gcc9-9.5.0nb1 => Build dependency py313-pybind11>=2.5.0: found py313-pybind11-2.13.6 => Build dependency py313-pythran>=0.10.0: found py313-pythran-0.16.1 => Build dependency python313>=3.13: found python313-3.13.0 => Full dependency cblas>=3.9.1nb1: found cblas-3.12.0 => Full dependency fftw>=3.3.10nb1: found fftw-3.3.10nb2 => Full dependency gcc9-libs>=9.3.0: found gcc9-libs-9.5.0nb2 => Full dependency lapack>=3.9.0nb1: found lapack-3.12.0 => Full dependency lapacke>=3.9.1nb2: found lapacke-3.12.0 => Full dependency py313-cython>=0.12.1: found py313-cython-3.0.11 => Full dependency py313-numpy>=1.23.5: found py313-numpy-2.1.2 ===> Skipping vulnerability checks. WARNING: No /usr/pkg/pkgdb/pkg-vulnerabilities file found. WARNING: To fix run: `/usr/sbin/pkg_admin -K /usr/pkg/pkgdb fetch-pkg-vulnerabilities'. ===> Overriding tools for py313-scipy-1.14.1 ===> Extracting for py313-scipy-1.14.1 ===> Patching for py313-scipy-1.14.1 => Applying pkgsrc patches for py313-scipy-1.14.1 => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_spatial___ckdtree.pyx => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_spatial___ckdtree.pyx Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-scipy_spatial___ckdtree.pyx,v 1.4 2023/07/17 19:39:56 tnn Exp $ | |Fix missing isnan/isinf. |Build breaks on at least NetBSD-10.99.4-aarch64 without this: | |scipy/spatial/_ckdtree.cxx: In function 'PyObject* __pyx_pf_5scipy_7spatial_8_ckdtree_7cKDTree_16count_neighbors(__pyx_obj_5scipy_7spatial_8_ckdtree_cKDTree*, __pyx_obj_5scipy_7spatial_8_ckdtree_cKDTree*, PyObject*, __pyx_t_5numpy_float64_t, PyObject*, int)': |scipy/spatial/_ckdtree.cxx:13392:19: error: 'isinf' was not declared in this scope; did you mean 'std::isinf'? | |--- scipy/spatial/_ckdtree.pyx.orig 1970-01-01 00:00:00.000000000 +0000 |+++ scipy/spatial/_ckdtree.pyx -------------------------- Patching file scipy/spatial/_ckdtree.pyx using Plan A... Hunk #1 succeeded at 16. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_spatial_ckdtree_src_ckdtree__decl.h => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_spatial_ckdtree_src_ckdtree__decl.h Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-scipy_spatial_ckdtree_src_ckdtree__decl.h,v 1.4 2024/04/19 19:24:25 adam Exp $ | |Many errors like this: |scipy/spatial/ckdtree/src/query_pairs.cxx:110:16: error: argument to '__builtin_prefetch' must be a constant integer | |--- scipy/spatial/ckdtree/src/ckdtree_decl.h.orig 2024-04-02 18:31:54.000000000 +0000 |+++ scipy/spatial/ckdtree/src/ckdtree_decl.h -------------------------- Patching file scipy/spatial/ckdtree/src/ckdtree_decl.h using Plan A... Hunk #1 succeeded at 9. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_Faddeeva.hh => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_Faddeeva.hh Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-scipy_special_Faddeeva.hh,v 1.1 2023/05/08 20:39:18 tnn Exp $ | |Fix missing isnan/isinf. | |--- scipy/special/Faddeeva.hh.orig 1970-01-01 00:00:00.000000000 +0000 |+++ scipy/special/Faddeeva.hh -------------------------- Patching file scipy/special/Faddeeva.hh using Plan A... Hunk #1 succeeded at 28. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_boost__special__functions.h => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_boost__special__functions.h Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-scipy_special_boost__special__functions.h,v 1.1 2024/07/31 18:15:38 adam Exp $ | |Fix build. | |--- scipy/special/boost_special_functions.h.orig 2024-07-31 10:20:15.401014832 +0000 |+++ scipy/special/boost_special_functions.h -------------------------- Patching file scipy/special/boost_special_functions.h using Plan A... Hunk #1 succeeded at 5. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_meson.build => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_meson.build Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-scipy_special_meson.build,v 1.1 2024/07/31 18:15:38 adam Exp $ | |libsf_error_state is better handled as a static library. | |--- scipy/special/meson.build.orig 2024-06-24 18:58:56.000000000 +0000 |+++ scipy/special/meson.build -------------------------- Patching file scipy/special/meson.build using Plan A... Hunk #1 succeeded at 33. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_special_amos_amos.h => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_special_amos_amos.h Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-scipy_special_special_amos_amos.h,v 1.2 2024/07/31 18:15:38 adam Exp $ | |Prefer C++ headers. |Fix error: 'isinf' was not declared in this scope; did you mean 'std::isinf'? | |--- scipy/special/special/amos/amos.h.orig 2024-06-24 18:58:56.000000000 +0000 |+++ scipy/special/special/amos/amos.h -------------------------- Patching file scipy/special/special/amos/amos.h using Plan A... Hunk #1 succeeded at 94. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_special_specfun.h => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_special_specfun.h Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-scipy_special_special_specfun.h,v 1.2 2024/07/31 18:15:38 adam Exp $ | |Fix error: 'isinf' was not declared in this scope; did you mean 'std::isinf'? | |--- scipy/special/special/specfun.h.orig 2024-06-24 18:58:56.000000000 +0000 |+++ scipy/special/special/specfun.h -------------------------- Patching file scipy/special/special/specfun.h using Plan A... Hunk #1 succeeded at 26. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_special_specfun_specfun.h => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_special_specfun_specfun.h Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-scipy_special_special_specfun_specfun.h,v 1.1 2024/07/31 18:15:38 adam Exp $ | |Prefer C++ copysign(). | |--- scipy/special/special/specfun/specfun.h.orig 2024-07-31 10:16:24.693973249 +0000 |+++ scipy/special/special/specfun/specfun.h -------------------------- Patching file scipy/special/special/specfun/specfun.h using Plan A... Hunk #1 succeeded at 2096. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_stirling2.h => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_stirling2.h Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-scipy_special_stirling2.h,v 1.2 2024/07/31 18:15:38 adam Exp $ | |Prefer C++ headers. |Fix error: 'isinf' was not declared in this scope; did you mean 'std::isinf'? | |--- scipy/special/stirling2.h.orig 2024-06-24 18:58:56.000000000 +0000 |+++ scipy/special/stirling2.h -------------------------- Patching file scipy/special/stirling2.h using Plan A... Hunk #1 succeeded at 1. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_wright.hh => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_special_wright.hh Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-scipy_special_wright.hh,v 1.1 2023/05/08 20:39:18 tnn Exp $ | |Fix missing isnan/isinf. | |--- scipy/special/wright.hh.orig 1970-01-01 00:00:00.000000000 +0000 |+++ scipy/special/wright.hh -------------------------- Patching file scipy/special/wright.hh using Plan A... Hunk #1 succeeded at 2. done => Verifying /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_stats___unuran_meson.build => Applying pkgsrc patch /amd/pkgsrc/CHROOT/P/pkgsrc/math/py-scipy/patches/patch-scipy_stats___unuran_meson.build Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |$NetBSD: patch-scipy_stats___unuran_meson.build,v 1.1 2023/08/26 19:50:01 tnn Exp $ | |On NetBSD/powerpc and evbarm, you can't build with _ISOC99_SOURCE defined, |the include of deep down in the python headers will fail |with undefined types. | |--- scipy/stats/_unuran/meson.build.orig 1970-01-01 00:00:00.000000000 +0000 |+++ scipy/stats/_unuran/meson.build -------------------------- Patching file scipy/stats/_unuran/meson.build using Plan A... Hunk #1 succeeded at 209 (offset 5 lines). done ===> Creating toolchain wrappers for py313-scipy-1.14.1 ===> Configuring for py313-scipy-1.14.1 /bin/ln -sf /usr/pkg/bin/pybind11-config-3.13 /tmp/math/py-scipy/work/.buildlink/bin/pybind11-config => Fixing f2py binary name. => Fixing pythran binary name. => Checking for portability problems in extracted files