:: Synchronizing package databases... build-support-manual downloading... build-support downloading... core-staging downloading... extra-staging downloading... core-testing downloading... core downloading... extra-testing downloading... extra downloading... :: Starting full system upgrade... there is nothing to do ==> Building in chroot for [extra-staging-with-build-support] (i486)... ==> Synchronizing chroot copy [/var/lib/archbuild/extra-staging-with-build-support-i486/root] -> [build]...done ==> Making package: python-rpy2 3.5.17-2.0 (Thu May 8 03:29:22 2025) ==> Retrieving sources... -> Updating rpy2 git repo... ==> Validating source files with sha256sums... rpy2 ... Passed gpg: Warning: using insecure memory! ==> Appending keys from archlinux32.gpg... gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! gpg: Warning: using insecure memory! ==> Updating trust database... gpg: Warning: using insecure memory! gpg: next trustdb check due at 2025-06-16 ==> Making package: python-rpy2 3.5.17-2.0 (Thu May 8 03:29:32 2025) ==> Checking runtime dependencies... ==> Installing missing dependencies... resolving dependencies... looking for conflicting packages... warning: dependency cycle detected: warning: harfbuzz will be installed before its freetype2 dependency Packages (43) blas-3.12.1-2.0 cairo-1.18.2-2.0 cblas-3.12.1-2.0 fontconfig-2:2.16.2-1.0 freetype2-2.13.3-1.0 fribidi-1.0.16-1.0 graphite-1:1.3.14-3.3 harfbuzz-7.1.0-1.0 jbigkit-2.1-8.0 lapack-3.12.1-2.0 libdatrie-0.2.13-4.0 libice-1.1.2-1.0 libjpeg-turbo-3.1.0-1.0 libpng-1.6.47-1.0 libsm-1.2.6-1.0 libthai-0.1.29-3.0 libtiff-4.7.0-1.0 libx11-1.8.12-1.0 libxau-1.0.12-1.0 libxcb-1.17.0-1.0 libxdmcp-1.1.5-1.0 libxext-1.3.6-1.0 libxft-2.3.9-1.0 libxmu-1.2.0-1.0 libxrender-0.9.12-1.0 libxt-1.3.0-2.0 lzo-2.10-5.1 mpdecimal-4.0.0-2.153 pango-1:1.50.14-1.1 pixman-0.44.2-1.0 python-markupsafe-2.1.5-2.2 python-pycparser-2.22-3.0 unzip-6.0-21.0 xcb-proto-1.17.0-3.0 xorgproto-2024.1-2.0 zip-3.0-11.0 python-3.13.3-1.0 python-cffi-1.17.1-1.0 python-jinja-1:3.1.4-1.0 python-numpy-2.2.0-1.0 python-pytz-2024.2-1.0 python-tzlocal-1:5.2-2.1 r-4.3.0-1.0 Total Installed Size: 251.41 MiB :: Proceed with installation? [Y/n] checking keyring... checking package integrity... loading package files... checking for file conflicts... :: Processing package changes... installing mpdecimal... installing python... Optional dependencies for python python-setuptools: for building Python packages using tooling that is usually bundled with Python python-pip: for installing Python packages using tooling that is usually bundled with Python python-pipx: for installing Python software not packaged on Arch Linux sqlite: for a default database integration [installed] xz: for lzma [installed] tk: for tkinter installing python-pycparser... installing python-cffi... Optional dependencies for python-cffi python-setuptools: "limited api" version checking in cffi.setuptools_ext installing python-markupsafe... installing python-jinja... Optional dependencies for python-jinja python-babel: for i18n support installing blas... installing cblas... installing lapack... installing python-numpy... Optional dependencies for python-numpy blas-openblas: faster linear algebra installing python-pytz... installing python-tzlocal... installing jbigkit... installing libjpeg-turbo... Optional dependencies for libjpeg-turbo java-runtime>11: for TurboJPEG Java wrapper installing libtiff... Optional dependencies for libtiff freeglut: for using tiffgt installing xcb-proto... installing xorgproto... installing libxdmcp... installing libxau... installing libxcb... installing libx11... installing libxext... installing libice... installing libsm... installing libxt... installing libxmu... installing libpng... installing graphite... Optional dependencies for graphite graphite-docs: Documentation installing harfbuzz... Optional dependencies for harfbuzz harfbuzz-utils: utilities installing freetype2... installing fontconfig... Creating fontconfig configuration... Rebuilding fontconfig cache... installing libxrender... installing lzo... installing pixman... installing cairo... installing fribidi... installing libdatrie... installing libthai... installing libxft... installing pango... installing zip... installing unzip... installing r... Optional dependencies for r tk: tcl/tk interface texlive-bin: latex sty files gcc-fortran: needed to compile some CRAN packages openblas: faster linear algebra :: Running post-transaction hooks... (1/4) Arming ConditionNeedsUpdate... (2/4) Updating fontconfig configuration... (3/4) Updating fontconfig cache... (4/4) Updating the info directory file... ==> Checking buildtime dependencies... ==> Installing missing dependencies... resolving dependencies... looking for conflicting packages... Packages (10) perl-error-0.17029-7.0 perl-mailtools-2.22-1.0 perl-timedate-2.33-7.0 python-packaging-25.0-1.0 python-pyproject-hooks-1.2.0-3.1 git-2.47.0-1.0 python-build-1-1.3 python-installer-1-1.3 python-setuptools-1-1.3 python-wheel-1-1.3 Total Installed Size: 56.73 MiB :: Proceed with installation? [Y/n] checking keyring... checking package integrity... loading package files... checking for file conflicts... :: Processing package changes... installing perl-error... installing perl-timedate... installing perl-mailtools... installing git... Optional dependencies for git tk: gitk and git gui openssh: ssh transport and crypto perl-libwww: git svn perl-term-readkey: git svn and interactive.singlekey setting perl-io-socket-ssl: git send-email TLS support perl-authen-sasl: git send-email TLS support perl-mediawiki-api: git mediawiki support perl-datetime-format-iso8601: git mediawiki support perl-lwp-protocol-https: git mediawiki https support perl-cgi: gitweb (web interface) support python: git svn & git p4 [installed] subversion: git svn org.freedesktop.secrets: keyring credential helper libsecret: libsecret credential helper [installed] installing python-packaging... installing python-pyproject-hooks... installing python-build... installing python-installer... installing python-setuptools... installing python-wheel... :: Running post-transaction hooks... (1/4) Creating system user accounts... /usr/lib/sysusers.d/uuidd.conf:1: Unknown modifier 'u!'. Creating group 'git' with GID 972. Creating user 'git' (git daemon user) with UID 972 and GID 972. (2/4) Reloading system manager configuration... Skipped: Current root is not booted. (3/4) Arming ConditionNeedsUpdate... (4/4) Checking for old perl modules... ==> Retrieving sources... ==> WARNING: Skipping all source file integrity checks. ==> Extracting sources... -> Creating working copy of rpy2 git repo... Cloning into 'rpy2'... done. Switched to a new branch 'makepkg' ==> Starting prepare()... ==> Starting build()... * Getting build dependencies for wheel... /usr/bin/ld: warning: libicuuc.so.72, needed by /usr/lib/R/lib/libR.so, not found (try using -rpath or -rpath-link) /usr/bin/ld: warning: libicui18n.so.72, needed by /usr/lib/R/lib/libR.so, not found (try using -rpath or -rpath-link) /usr/bin/ld: /usr/lib/R/lib/libR.so: undefined reference to `uiter_setUTF8_72' /usr/bin/ld: /usr/lib/R/lib/libR.so: undefined reference to `ucol_setAttribute_72' /usr/bin/ld: /usr/lib/R/lib/libR.so: undefined reference to `ucol_getLocaleByType_72' /usr/bin/ld: /usr/lib/R/lib/libR.so: undefined reference to `u_getVersion_72' /usr/bin/ld: /usr/lib/R/lib/libR.so: undefined reference to `ucol_strcollIter_72' /usr/bin/ld: /usr/lib/R/lib/libR.so: undefined reference to `ucol_open_72' /usr/bin/ld: /usr/lib/R/lib/libR.so: undefined reference to `ucol_close_72' /usr/bin/ld: /usr/lib/R/lib/libR.so: undefined reference to `ucol_setStrength_72' /usr/bin/ld: /usr/lib/R/lib/libR.so: undefined reference to `u_versionToString_72' /usr/bin/ld: /usr/lib/R/lib/libR.so: undefined reference to `uloc_setDefault_72' collect2: error: ld returned 1 exit status Traceback (most recent call last): File "/usr/lib/python3.13/site-packages/setuptools/_distutils/spawn.py", line 70, in spawn subprocess.check_call(cmd, env=_inject_macos_ver(env)) ~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/lib/python3.13/subprocess.py", line 419, in check_call raise CalledProcessError(retcode, cmd) subprocess.CalledProcessError: Command '['/usr/bin/gcc', '/tmp/tmp_pw_r_y18p3dhb/tmp/tmp_pw_r_y18p3dhb/test_pw_r.o', '-L/usr/lib/R/lib', '-lR', '-lpcre2-8', '-llzma', '-lbz2', '-lz', '-ltirpc', '-lrt', '-ldl', '-lm', '-licuuc', '-licui18n', '-o', '/tmp/tmp_pw_r_y18p3dhb/test_pw_r']' returned non-zero exit status 1. The above exception was the direct cause of the following exception: Traceback (most recent call last): File "/usr/lib/python3.13/site-packages/setuptools/_distutils/unixccompiler.py", line 287, in link self.spawn(linker + ld_args) ~~~~~~~~~~^^^^^^^^^^^^^^^^^^ File "/usr/lib/python3.13/site-packages/setuptools/_distutils/ccompiler.py", line 1045, in spawn spawn(cmd, dry_run=self.dry_run, **kwargs) ~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/lib/python3.13/site-packages/setuptools/_distutils/spawn.py", line 76, in spawn raise DistutilsExecError( f"command {_debug(cmd)!r} failed with exit code {err.returncode}" ) from err distutils.errors.DistutilsExecError: command '/usr/bin/gcc' failed with exit code 1 During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib/python3.13/site-packages/pyproject_hooks/_in_process/_in_process.py", line 389, in main() ~~~~^^ File "/usr/lib/python3.13/site-packages/pyproject_hooks/_in_process/_in_process.py", line 373, in main json_out["return_val"] = hook(**hook_input["kwargs"]) ~~~~^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/lib/python3.13/site-packages/pyproject_hooks/_in_process/_in_process.py", line 143, in get_requires_for_build_wheel return hook(config_settings) File "/usr/lib/python3.13/site-packages/setuptools/build_meta.py", line 332, in get_requires_for_build_wheel return self._get_build_requires(config_settings, requirements=[]) ~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/lib/python3.13/site-packages/setuptools/build_meta.py", line 302, in _get_build_requires self.run_setup() ~~~~~~~~~~~~~~^^ File "/usr/lib/python3.13/site-packages/setuptools/build_meta.py", line 318, in run_setup exec(code, locals()) ~~~~^^^^^^^^^^^^^^^^ File "", line 141, in File "", line 121, in get_r_c_extension_status File "", line 82, in get_c_extension_status File "/usr/lib/python3.13/site-packages/setuptools/_distutils/ccompiler.py", line 787, in link_executable self.link( ~~~~~~~~~^ CCompiler.EXECUTABLE, ^^^^^^^^^^^^^^^^^^^^^ ...<11 lines>... target_lang, ^^^^^^^^^^^^ ) ^ File "/usr/lib/python3.13/site-packages/setuptools/_distutils/unixccompiler.py", line 289, in link raise LinkError(msg) distutils.errors.LinkError: command '/usr/bin/gcc' failed with exit code 1 ERROR Backend subprocess exited when trying to invoke get_requires_for_build_wheel ==> ERROR: A failure occurred in build(). Aborting... ==> ERROR: Build failed, check /var/lib/archbuild/extra-staging-with-build-support-i486/build/build used straw: :with_build_support:without_check: build@euronuc-i486