* Package: sys-cluster/torque-6.0.4-r2 * Repository: gentoo * Maintainer: cluster@gentoo.org * USE: abi_x86_64 amd64 autorun cgroups crypt elibc_musl kernel_linux syslog userland_GNU * FEATURES: network-sandbox preserve-libs sandbox userpriv usersandbox * Determining the location of the kernel source code * Found kernel source directory: * /usr/src/linux * Found sources for kernel version: * 5.16.6-gentoo-dist >>> Unpacking source... >>> Unpacking torque-6.0.4-gh-20170829.tar.gz to /var/tmp/portage/sys-cluster/torque-6.0.4-r2/work >>> Unpacking torque-6.0.4-gcc7.patch to /var/tmp/portage/sys-cluster/torque-6.0.4-r2/work unpack torque-6.0.4-gcc7.patch: file format not recognized. Ignoring. >>> Unpacking torque-6.0.4-glibc-2.34-pthread.patch.bz2 to /var/tmp/portage/sys-cluster/torque-6.0.4-r2/work >>> Source unpacked in /var/tmp/portage/sys-cluster/torque-6.0.4-r2/work >>> Preparing source in /var/tmp/portage/sys-cluster/torque-6.0.4-r2/work/torque-6a0b37f85c7d644e9217cbab1542792d646f59a6 ... * Applying torque-6.0.4-gcc7.patch ... patching file src/cmds/qdel.c patching file src/cmds/qsub_functions.c Hunk #1 succeeded at 3292 (offset -71 lines). patching file src/cmds/qterm.c Hunk #1 succeeded at 57 with fuzz 2 (offset -32 lines). patching file src/include/array.h patching file src/include/attribute.h Hunk #1 succeeded at 503 (offset -9 lines). patching file src/lib/Libattr/attr_fn_acl.c patching file src/lib/Libattr/attr_fn_arst.c Hunk #2 succeeded at 696 (offset -40 lines). patching file src/lib/Libcmds/cvtdate.c patching file src/lib/Libdis/disrsc.c patching file src/lib/Libdis/disrsi.c patching file src/lib/Libdis/disrsl.c patching file src/lib/Libdis/disrss.c patching file src/lib/Libnet/net_client.c patching file src/lib/Libnet/net_common.c Hunk #1 succeeded at 396 (offset -9 lines). patching file src/resmom/checkpoint.c patching file src/resmom/generate_alps_status.c patching file src/resmom/linux/mom_mach.c Hunk #2 succeeded at 1211 (offset -11 lines). Hunk #3 succeeded at 1225 (offset -11 lines). Hunk #4 succeeded at 1266 (offset -11 lines). Hunk #5 succeeded at 1278 (offset -11 lines). Hunk #6 succeeded at 1567 (offset -11 lines). Hunk #7 succeeded at 1580 (offset -11 lines). Hunk #8 succeeded at 1618 (offset -11 lines). Hunk #9 succeeded at 1631 (offset -11 lines). Hunk #10 succeeded at 1647 (offset -11 lines). Hunk #11 succeeded at 5045 (offset 40 lines). Hunk #12 succeeded at 5069 (offset 40 lines). Hunk #13 succeeded at 5139 (offset 40 lines). Hunk #14 succeeded at 5167 (offset 40 lines). patching file src/resmom/mom_main.c Hunk #1 succeeded at 1064 (offset -3 lines). Hunk #2 succeeded at 6380 (offset -139 lines). patching file src/resmom/mom_req_quejob.c patching file src/resmom/mom_server.c Hunk #1 succeeded at 1875 (offset -25 lines). Hunk #2 succeeded at 1884 (offset -25 lines). Hunk #3 succeeded at 1905 (offset -25 lines). patching file src/resmom/parse_config.c Hunk #1 succeeded at 2312 (offset -73 lines). patching file src/resmom/requests.c Hunk #1 succeeded at 1484 (offset -6 lines). patching file src/scheduler.cc/samples/fifo/dedtime.c patching file src/server/array_func.c Hunk #2 succeeded at 93 (offset 3 lines). Hunk #3 succeeded at 157 (offset 3 lines). patching file src/server/array_func.h patching file src/server/job_func.c Hunk #1 succeeded at 2429 (offset 42 lines). patching file src/server/node_attr_def.c patching file src/server/node_manager.c Hunk #1 succeeded at 934 (offset 10 lines). patching file src/server/pbsd_init.c Hunk #1 succeeded at 2655 (offset -12 lines). patching file src/server/process_request.c Hunk #1 succeeded at 777 (offset -18 lines). Hunk #2 succeeded at 785 (offset -18 lines). Hunk #3 succeeded at 825 (offset -18 lines). Hunk #4 succeeded at 870 (offset -18 lines). Hunk #5 succeeded at 954 (offset -18 lines). patching file src/server/req_quejob.c Hunk #1 succeeded at 324 (offset -2 lines). patching file src/server/req_runjob.c Hunk #1 succeeded at 1742 (offset 66 lines). patching file src/server/req_stat.c Hunk #1 succeeded at 243 (offset 2 lines). patching file src/server/svr_chk_owner.c Hunk #1 succeeded at 418 (offset 5 lines). patching file src/test/catch_child/scaffolding.c Hunk #1 succeeded at 1010 (offset -2 lines). patching file src/test/geteusernam/scaffolding.c Hunk #1 succeeded at 69 with fuzz 1 (offset 5 lines). patching file src/test/node_manager/test_uut.c Hunk #1 succeeded at 282 with fuzz 2 (offset -2 lines). patching file src/test/pbs_log/scaffolding.c patching file src/test/pbsd_main/scaffolding.c Hunk #1 succeeded at 401 (offset -6 lines). patching file src/test/process_alps_status/scaffolding.c Hunk #1 succeeded at 739 (offset 26 lines). patching file src/test/process_request/scaffolding.c Hunk #2 succeeded at 481 (offset -8 lines). patching file src/test/req_stat/scaffolding.c Hunk #1 succeeded at 227 (offset 6 lines). patching file src/test/svr_chk_owner/scaffolding.c Hunk #1 succeeded at 74 (offset -5 lines). patching file torque.setup.in patching file src/server/svr_jobfunc.c [ ok ] * Applying torque-6.0.3-fix-emptystring-comparison.patch ... [ ok ] * Applying torque-6.0.4-no-openssl.patch ... patching file README.building_40 patching file configure.ac Hunk #1 succeeded at 787 with fuzz 1 (offset 42 lines). patching file src/daemon_client/Makefile.am Hunk #1 succeeded at 4 with fuzz 2 (offset -1 lines). [ ok ] * Applying torque-6.0.4-error_buf_overflow_prevent.patch ... [ ok ] * Applying torque-6.0.4-glibc-2.34-pthread.patch ... [ ok ] * Running eautoreconf in '/var/tmp/portage/sys-cluster/torque-6.0.4-r2/work/torque-6a0b37f85c7d644e9217cbab1542792d646f59a6' ... * Running 'libtoolize --install --copy --force --automake' ... [ ok ] * Running 'aclocal -I buildutils --system-acdir=/var/tmp/portage/sys-cluster/torque-6.0.4-r2/temp/aclocal' ... [ ok ] * Running 'autoconf --force' ... [ ok ] * Running 'autoheader' ... [ ok ] * Running 'automake --add-missing --copy --foreign --force-missing' ... [ ok ] * Running elibtoolize in: torque-6a0b37f85c7d644e9217cbab1542792d646f59a6/ * Running elibtoolize in: torque-6a0b37f85c7d644e9217cbab1542792d646f59a6/buildutils/ * Applying portage/1.2.0 patch ... * Applying sed/1.5.6 patch ... * Applying as-needed/2.4.3 patch ... * Applying static-flags/2.4.6 patch ... >>> Source prepared. >>> Configuring source in /var/tmp/portage/sys-cluster/torque-6.0.4-r2/work/torque-6a0b37f85c7d644e9217cbab1542792d646f59a6 ... * econf: updating torque-6a0b37f85c7d644e9217cbab1542792d646f59a6/config.sub with /usr/share/gnuconfig/config.sub * econf: updating torque-6a0b37f85c7d644e9217cbab1542792d646f59a6/config.guess with /usr/share/gnuconfig/config.guess * econf: updating torque-6a0b37f85c7d644e9217cbab1542792d646f59a6/buildutils/config.sub with /usr/share/gnuconfig/config.sub * econf: updating torque-6a0b37f85c7d644e9217cbab1542792d646f59a6/buildutils/config.guess with /usr/share/gnuconfig/config.guess ./configure --prefix=/usr --build=x86_64-gentoo-linux-musl --host=x86_64-gentoo-linux-musl --mandir=/usr/share/man --infodir=/usr/share/info --datadir=/usr/share --sysconfdir=/etc --localstatedir=/var/lib --datarootdir=/usr/share --disable-dependency-tracking --disable-silent-rules --disable-static --docdir=/usr/share/doc/torque-6.0.4-r2 --htmldir=/usr/share/doc/torque-6.0.4-r2/html --with-sysroot=/ --libdir=/usr/lib --disable-gui --disable-tcl-qstat --enable-syslog --disable-server --disable-drmaa --disable-munge-auth --disable-nvidia-gpus --with-rcp=scp --disable-cpuset --enable-cgroups --enable-autorun --disable-quickcommit --with-server-home=/var/spool/torque --with-environ=/etc/pbs_environment --with-default-server=localhost --disable-gcc-warnings --disable-silent-rules --with-tcp-retry-limit=2 --without-loadlibfile checking build system type... x86_64-gentoo-linux-musl checking host system type... x86_64-gentoo-linux-musl checking for x86_64-gentoo-linux-musl-g++... x86_64-gentoo-linux-musl-g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether x86_64-gentoo-linux-musl-g++ accepts -g... yes checking for x86_64-gentoo-linux-musl-g++ option to enable C++11 features... none needed checking for x86_64-gentoo-linux-musl-gcc... x86_64-gentoo-linux-musl-gcc checking whether the compiler supports GNU C... yes checking whether x86_64-gentoo-linux-musl-gcc accepts -g... yes checking for x86_64-gentoo-linux-musl-gcc option to enable C11 features... none needed checking whether x86_64-gentoo-linux-musl-gcc understands -c and -o together... yes checking for x86_64-gentoo-linux-musl-ar... x86_64-gentoo-linux-musl-ar checking the archiver (x86_64-gentoo-linux-musl-ar) interface... ar checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for fgrep... /bin/grep -F checking for ld used by x86_64-gentoo-linux-musl-gcc... /usr/x86_64-gentoo-linux-musl/bin/ld checking if the linker (/usr/x86_64-gentoo-linux-musl/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/x86_64-gentoo-linux-musl-nm -B checking the name lister (/usr/bin/x86_64-gentoo-linux-musl-nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 98304 checking how to convert x86_64-gentoo-linux-musl file names to x86_64-gentoo-linux-musl format... func_convert_file_noop checking how to convert x86_64-gentoo-linux-musl file names to toolchain format... func_convert_file_noop checking for /usr/x86_64-gentoo-linux-musl/bin/ld option to reload object files... -r checking for x86_64-gentoo-linux-musl-objdump... x86_64-gentoo-linux-musl-objdump checking how to recognize dependent libraries... pass_all checking for x86_64-gentoo-linux-musl-dlltool... x86_64-gentoo-linux-musl-dlltool checking how to associate runtime and link libraries... printf %s\n checking for x86_64-gentoo-linux-musl-ar... (cached) x86_64-gentoo-linux-musl-ar checking for archiver @FILE support... @ checking for x86_64-gentoo-linux-musl-strip... x86_64-gentoo-linux-musl-strip checking for x86_64-gentoo-linux-musl-ranlib... x86_64-gentoo-linux-musl-ranlib checking for gawk... gawk checking command to parse /usr/bin/x86_64-gentoo-linux-musl-nm -B output from x86_64-gentoo-linux-musl-gcc object... ok checking for sysroot... / checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for x86_64-gentoo-linux-musl-mt... no checking for mt... mt checking if mt is a manifest tool... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if x86_64-gentoo-linux-musl-gcc supports -fno-rtti -fno-exceptions... no checking for x86_64-gentoo-linux-musl-gcc option to produce PIC... -fPIC -DPIC checking if x86_64-gentoo-linux-musl-gcc PIC flag -fPIC -DPIC works... yes checking if x86_64-gentoo-linux-musl-gcc static flag -static works... yes checking if x86_64-gentoo-linux-musl-gcc supports -c -o file.o... yes checking if x86_64-gentoo-linux-musl-gcc supports -c -o file.o... (cached) yes checking whether the x86_64-gentoo-linux-musl-gcc linker (/usr/x86_64-gentoo-linux-musl/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... x86_64-gentoo-linux-musl-g++ -E checking for ld used by x86_64-gentoo-linux-musl-g++... /usr/x86_64-gentoo-linux-musl/bin/ld -m elf_x86_64 checking if the linker (/usr/x86_64-gentoo-linux-musl/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the x86_64-gentoo-linux-musl-g++ linker (/usr/x86_64-gentoo-linux-musl/bin/ld -m elf_x86_64) supports shared libraries... yes checking for x86_64-gentoo-linux-musl-g++ option to produce PIC... -fPIC -DPIC checking if x86_64-gentoo-linux-musl-g++ PIC flag -fPIC -DPIC works... yes checking if x86_64-gentoo-linux-musl-g++ static flag -static works... yes checking if x86_64-gentoo-linux-musl-g++ supports -c -o file.o... yes checking if x86_64-gentoo-linux-musl-g++ supports -c -o file.o... (cached) yes checking whether the x86_64-gentoo-linux-musl-g++ linker (/usr/x86_64-gentoo-linux-musl/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for make... make checking for a BSD-compatible install... /usr/lib/portage/python3.9/ebuild-helpers/xattr/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /bin/mkdir -p checking whether make sets $(MAKE)... yes checking whether make supports the include directive... yes (GNU style) checking whether make supports nested variables... yes checking dependency style of x86_64-gentoo-linux-musl-gcc... none checking dependency style of x86_64-gentoo-linux-musl-g++... none checking whether to enable maintainer-specific portions of Makefiles... no fatal: not a git repository (or any parent up to mount point /var/tmp) Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). cat: current_hash: No such file or directory checking for x86_64-gentoo-linux-musl-pkg-config... /usr/bin/x86_64-gentoo-linux-musl-pkg-config checking pkg-config is at least version 0.9.0... yes checking PBS machine type... linux checking whether make supports nested variables... (cached) yes checking whether to turn on the AUTORUN_JOBS flag... yes checking whether to turn on the RESOURCEMAXDEFAULT flag... no checking whether to turn on the QUICKCOMMIT flag... no checking whether to include server and scheduler... no checking whether to include the mom daemon... yes checking whether to include the clients... yes checking whether to build DRMAA lib... no checking for ar... (cached) x86_64-gentoo-linux-musl-ar checking whether ln -s works... yes checking for flex... flex checking for lex output file root... lex.yy checking for lex library... none needed checking whether yytext is a pointer... yes checking for bison... bison -y checking for gtbl... gtbl checking for gpic... no checking for pic... pic checking for groff... groff checking whether to turn on the compilation of DEBUG code... no checking whether to compile with debugging symbols... DEBUG_SYMBOLS=yes before tweak CFLAGS=-pipe -march=native -fno-diagnostics-color -O2 -fpermissive mid tweak CFLAGS=-pipe -march=native -fno-diagnostics-color -fpermissive after tweak CFLAGS=-g -pipe -march=native -fno-diagnostics-color -fpermissive before tweak CXXFLAGS=-g -pipe -march=native -fno-diagnostics-color -O2 mid tweak CXXFLAGS=-g -pipe -march=native -fno-diagnostics-color after tweak CXXFLAGS=-g -pipe -march=native -fno-diagnostics-color checking whether to disable strict gcc warnings... yes checking for stat64... yes checking for open64... yes checking for lseek64... yes ./configure: line 19022: ac_fn_c_check_member: command not found checking for struct stat64.st_mode... yes checking if largefile compiles... checking how to run the C preprocessor... x86_64-gentoo-linux-musl-gcc -E checking whether x86_64-gentoo-linux-musl-gcc is Clang... no checking whether pthreads work with "-pthread" and "-lpthread"... yes checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE checking whether more special flags are required for pthreads... no checking for PTHREAD_PRIO_INHERIT... yes checking for xmlGetProp in -lxml2... yes checking whether to create only the top temporary job directory... no checking whether to force XOPEN networking stack... no... phew! checking for dirent.h that defines DIR... yes checking for library containing opendir... none required checking for egrep... (cached) /bin/grep -E checking for sys/wait.h that is POSIX.1 compatible... yes checking for arpa/inet.h... yes checking for fcntl.h... yes checking for float.h... yes checking for limits.h... yes checking for malloc.h... yes checking for netdb.h... yes checking for netinet/in.h... yes checking for stddef.h... yes checking for sys/file.h... yes checking for sys/param.h... yes checking for sys/tty.h... no checking for sys/socket.h... yes checking for sys/time.h... yes checking for sys/ioctl.h... yes checking for sys/mount.h... yes checking for sys/vfs.h... yes checking for sys/statfs.h... yes checking for sys/statvfs.h... yes checking for sys/ucred.h... no checking for sys/un.h... yes checking for sys/uio.h... yes checking for syslog.h... yes checking for readline/readline.h... yes checking for termios.h... yes checking for err.h... yes checking for sys/poll.h... yes checking for pam/pam_modules.h... no checking for security/pam_appl.h... yes checking for mach/shared_region.h... no checking for security/pam_modules.h... yes checking whether to enable maxint job ids... no checking whether to enable cgroups... yes checking whether to enable cpusets... no checking whether to allow geometry requests... no checking whether to support NUMA systems... no checking whether to compile with coverage... no checking whether to compile with MIC support... no checking whether boost is installed... yes checking for minimum boost version (>=1.41.0)... yes checking whether to build Nvidia gpu support... no checking for HWLOC... no configure: error: cgroup support requires the hwloc development package Package 'hwloc', required by 'virtual:world', not found This can be solved by configuring with --with-hwloc-path=. This path should be the path to the directory containing the lib/ and include/ directories for your version of hwloc. hwloc can be loaded by running the hwloc_install.sh script in the contrib directory within this Torque distribution. Another option is adding the directory containing 'hwloc.pc' to the PKG_CONFIG_PATH environment variable. If you have done these and still get this error, try running ./autogen.sh and then configuring again. !!! Please attach the following file when seeking support: !!! /var/tmp/portage/sys-cluster/torque-6.0.4-r2/work/torque-6a0b37f85c7d644e9217cbab1542792d646f59a6/config.log * ERROR: sys-cluster/torque-6.0.4-r2::gentoo failed (configure phase): * econf failed * * Call stack: * ebuild.sh, line 127: Called src_configure * environment, line 2718: Called econf '--disable-gui' '--disable-tcl-qstat' '--enable-syslog' '--disable-server' '--disable-drmaa' '--disable-munge-auth' '--disable-nvidia-gpus' '--with-rcp=scp' '--disable-cpuset' '--enable-cgroups' '--enable-autorun' '--disable-quickcommit' '--with-server-home=/var/spool/torque' '--with-environ=/etc/pbs_environment' '--with-default-server=localhost' '--disable-gcc-warnings' '--disable-silent-rules' '--with-tcp-retry-limit=2' '--without-loadlibfile' * phase-helpers.sh, line 711: Called __helpers_die 'econf failed' * isolated-functions.sh, line 112: Called die * The specific snippet of code: * die "$@" * * If you need support, post the output of `emerge --info '=sys-cluster/torque-6.0.4-r2::gentoo'`, * the complete build log and the output of `emerge -pqv '=sys-cluster/torque-6.0.4-r2::gentoo'`. * The complete build log is located at '/var/log/portage/sys-cluster:torque-6.0.4-r2:20220207-213938.log'. * For convenience, a symlink to the build log is located at '/var/tmp/portage/sys-cluster/torque-6.0.4-r2/temp/build.log'. * The ebuild environment file is located at '/var/tmp/portage/sys-cluster/torque-6.0.4-r2/temp/environment'. * Working directory: '/var/tmp/portage/sys-cluster/torque-6.0.4-r2/work/torque-6a0b37f85c7d644e9217cbab1542792d646f59a6' * S: '/var/tmp/portage/sys-cluster/torque-6.0.4-r2/work/torque-6a0b37f85c7d644e9217cbab1542792d646f59a6'