------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/libsigsegv-2.12.txz ===== Message from libsigsegv-2.12: -- Note that the stackoverflow handling functions of this library need procfs mounted on /proc. Installing /packages/All/ncurses-6.1.20190525.txz Installing /packages/All/indexinfo-0.3.1.txz Installing /packages/All/readline-8.0.4.txz Installing /packages/All/gettext-runtime-0.20.2.txz Installing /packages/All/gawk-5.1.0.txz Installing /packages/All/m4-1.4.18_1,1.txz Installing /packages/All/autoconf-wrapper-20131203.txz Installing /packages/All/perl5-5.30.2.txz ===== Message from perl5-5.30.2: -- The /usr/bin/perl symlink has been removed starting with Perl 5.20. For shebangs, you should either use: #!/usr/local/bin/perl or #!/usr/bin/env perl The first one will only work if you have a /usr/local/bin/perl, the second will work as long as perl is in PATH. Installing /packages/All/autoconf-2.69_3.txz Installing /packages/All/automake-1.16.2.txz Installing /packages/All/hdf-szip-2.1.1.txz Installing /packages/All/hdf5-1.10.6,1.txz Installing /packages/All/png-1.6.37.txz Installing /packages/All/libltdl-2.4.6.txz Installing /packages/All/gmp-6.2.0.txz Installing /packages/All/guile-1.8.8_4.txz Installing /packages/All/libmatheval-1.1.11_3.txz SUCCEEDED 00:00:12 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> h5utils-1.13.1_5 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> h5utils-1.13.1_5 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by h5utils-1.13.1_5 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> h5utils-1.13.1_5 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by h5utils-1.13.1_5 for building => SHA256 Checksum OK for stevengj-h5utils-1.13.1_GH0.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> h5utils-1.13.1_5 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by h5utils-1.13.1_5 for building ===> Extracting for h5utils-1.13.1_5 => SHA256 Checksum OK for stevengj-h5utils-1.13.1_GH0.tar.gz. Extracted Memory Use: 0.59M SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for h5utils-1.13.1_5 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> h5utils-1.13.1_5 depends on executable: gawk - found ===> h5utils-1.13.1_5 depends on package: autoconf>=2.69 - found ===> h5utils-1.13.1_5 depends on package: automake>=1.16.1 - found SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- ===> h5utils-1.13.1_5 depends on shared library: libhdf5.so - found (/usr/local/lib/libhdf5.so) ===> h5utils-1.13.1_5 depends on shared library: libpng.so - found (/usr/local/lib/libpng.so) ===> h5utils-1.13.1_5 depends on shared library: libmatheval.so - found (/usr/local/lib/libmatheval.so) SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> h5utils-1.13.1_5 depends on executable: gawk - found ===> h5utils-1.13.1_5 depends on package: autoconf>=2.69 - found ===> h5utils-1.13.1_5 depends on package: automake>=1.16.1 - found ===> h5utils-1.13.1_5 depends on shared library: libhdf5.so - found (/usr/local/lib/libhdf5.so) ===> h5utils-1.13.1_5 depends on shared library: libpng.so - found (/usr/local/lib/libpng.so) ===> h5utils-1.13.1_5 depends on shared library: libmatheval.so - found (/usr/local/lib/libmatheval.so) ===> Configuring for h5utils-1.13.1_5 configure.ac:10: installing './compile' configure.ac:3: installing './install-sh' configure.ac:3: installing './missing' Makefile.am: installing './depcomp' configure: loading site script /xports/Templates/config.site checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... (cached) /bin/mkdir -p checking for gawk... (cached) /usr/bin/awk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether make supports nested variables... (cached) yes checking whether to enable maintainer-specific portions of Makefiles... no checking for gcc... cc 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 we are using the GNU C compiler... yes checking whether cc accepts -g... yes checking for cc option to accept ISO C89... none needed checking whether cc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of cc... gcc3 checking how to run the C preprocessor... cpp checking for grep that handles long lines and -e... (cached) /usr/bin/grep checking for egrep... (cached) /usr/bin/egrep checking for ANSI C header files... (cached) yes checking for sin in -lm... yes checking for snprintf... (cached) yes checking for inflate in -lz... yes checking for png_create_write_struct in -lpng... yes checking for evaluator_get_variables in -lmatheval... yes checking for h4toh5... no checking for h5toh4... no checking for jpeg_start_compress in -ljpeg... no configure: WARNING: can't find libjpeg: won't be able to compile h5fromh4 or h4fromh5 checking for sys/types.h... (cached) yes checking for sys/stat.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for memory.h... (cached) yes checking for strings.h... (cached) yes checking for inttypes.h... (cached) yes checking for stdint.h... (cached) yes checking for unistd.h... (cached) yes checking hdf.h usability... no checking hdf.h presence... no checking for hdf.h... no checking hdf/hdf.h usability... no checking hdf/hdf.h presence... no checking for hdf/hdf.h... no checking for H5Fopen in -lhdf5... yes checking for v5dCreate in -lv5d... no checking vis5d/v5d.h usability... no checking vis5d/v5d.h presence... no checking for vis5d/v5d.h... no checking vis5d+/v5d.h usability... no checking vis5d+/v5d.h presence... no checking for vis5d+/v5d.h... no checking for arpa/inet.h... (cached) yes checking for netinet/in.h... (cached) yes checking for stdint.h... (cached) yes checking for inttypes.h... (cached) yes checking for uint16_t... yes checking for uint32_t... yes checking for htons... yes checking size of float... 4 checking for htonl... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating doc/man/h5topng.1 config.status: creating config.h config.status: executing depfiles commands SUCCEEDED 00:00:09 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for h5utils-1.13.1_5 --- all --- /usr/bin/make all-am --- h5totxt.o --- --- arrayh5.o --- --- h5utils.o --- --- h5fromtxt.o --- --- h5tovtk.o --- --- h5math.o --- --- h5topng.o --- --- writepng.o --- --- h5cyl2cart.o --- --- arrayh5.o --- cc -DHAVE_CONFIG_H -I. -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -MT arrayh5.o -MD -MP -MF .deps/arrayh5.Tpo -c -o arrayh5.o arrayh5.c --- h5utils.o --- cc -DHAVE_CONFIG_H -I. -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -MT h5utils.o -MD -MP -MF .deps/h5utils.Tpo -c -o h5utils.o h5utils.c --- h5fromtxt.o --- cc -DHAVE_CONFIG_H -I. -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -MT h5fromtxt.o -MD -MP -MF .deps/h5fromtxt.Tpo -c -o h5fromtxt.o h5fromtxt.c --- h5tovtk.o --- cc -DHAVE_CONFIG_H -I. -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -MT h5tovtk.o -MD -MP -MF .deps/h5tovtk.Tpo -c -o h5tovtk.o h5tovtk.c --- h5math.o --- cc -DHAVE_CONFIG_H -I. -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -MT h5math.o -MD -MP -MF .deps/h5math.Tpo -c -o h5math.o h5math.c --- writepng.o --- cc -DHAVE_CONFIG_H -I. -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -MT writepng.o -MD -MP -MF .deps/writepng.Tpo -c -o writepng.o writepng.c --- h5topng.o --- cc -DHAVE_CONFIG_H -I. -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -MT h5topng.o -MD -MP -MF .deps/h5topng.Tpo -c -o h5topng.o h5topng.c --- h5totxt.o --- cc -DHAVE_CONFIG_H -I. -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -MT h5totxt.o -MD -MP -MF .deps/h5totxt.Tpo -c -o h5totxt.o h5totxt.c --- h5cyl2cart.o --- cc -DHAVE_CONFIG_H -I. -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -MT h5cyl2cart.o -MD -MP -MF .deps/h5cyl2cart.Tpo -c -o h5cyl2cart.o h5cyl2cart.c --- h5utils.o --- h5utils.c: In function 'split_fname': h5utils.c:75:11: warning: 'strncpy' specified bound depends on the length of the source argument [-Wstringop-overflow=] strncpy(filename, fname, fname_len-colon_len+1); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ h5utils.c:69:18: note: length computed here fname_len = strlen(fname); ^~~~~~~~~~~~~ mv -f .deps/h5utils.Tpo .deps/h5utils.Po --- h5fromtxt.o --- mv -f .deps/h5fromtxt.Tpo .deps/h5fromtxt.Po --- h5totxt.o --- mv -f .deps/h5totxt.Tpo .deps/h5totxt.Po --- h5cyl2cart.o --- mv -f .deps/h5cyl2cart.Tpo .deps/h5cyl2cart.Po --- h5tovtk.o --- mv -f .deps/h5tovtk.Tpo .deps/h5tovtk.Po --- h5math.o --- mv -f .deps/h5math.Tpo .deps/h5math.Po --- writepng.o --- mv -f .deps/writepng.Tpo .deps/writepng.Po --- h5topng.o --- mv -f .deps/h5topng.Tpo .deps/h5topng.Po --- arrayh5.o --- mv -f .deps/arrayh5.Tpo .deps/arrayh5.Po --- h5cyl2cart --- --- h5fromtxt --- --- h5math --- --- h5topng --- --- h5totxt --- --- h5tovtk --- --- h5fromtxt --- cc -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -o h5fromtxt h5fromtxt.o arrayh5.o h5utils.o -lhdf5 -lz -lm --- h5topng --- cc -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -o h5topng h5topng.o writepng.o arrayh5.o h5utils.o -lpng -lhdf5 -lz -lm --- h5totxt --- cc -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -o h5totxt h5totxt.o arrayh5.o h5utils.o -lhdf5 -lz -lm --- h5math --- cc -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -o h5math h5math.o arrayh5.o h5utils.o -lmatheval -lhdf5 -lz -lm --- h5cyl2cart --- cc -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -o h5cyl2cart h5cyl2cart.o arrayh5.o h5utils.o -lhdf5 -lz -lm --- h5tovtk --- cc -pipe -L/usr/local/lib -I/usr/local/include -lpthread -O2 -fno-strict-aliasing -o h5tovtk h5tovtk.o arrayh5.o h5utils.o -lhdf5 -lz -lm SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for h5utils-1.13.1_5 ===> Generating temporary packing list /bin/mkdir -p '/construction/science/h5utils/stage/usr/local/bin' install -s -m 555 h5totxt h5fromtxt h5tovtk h5math h5topng '/construction/science/h5utils/stage/usr/local/bin' /bin/mkdir -p '/construction/science/h5utils/stage/usr/local/man/man1' install -m 0644 doc/man/h5totxt.1 doc/man/h5fromtxt.1 doc/man/h5tovtk.1 doc/man/h5math.1 doc/man/h5topng.1 '/construction/science/h5utils/stage/usr/local/man/man1' /bin/mkdir -p '/construction/science/h5utils/stage/usr/local/share/h5utils' /bin/mkdir -p '/construction/science/h5utils/stage/usr/local/share/h5utils/colormaps' install -m 0644 colormaps/autumn colormaps/bluered colormaps/bone colormaps/colorcube colormaps/cool colormaps/copper colormaps/flag colormaps/gray colormaps/green colormaps/hot colormaps/hsv colormaps/jet colormaps/lines colormaps/pink colormaps/prism colormaps/spring colormaps/summer colormaps/vga colormaps/winter colormaps/yarg colormaps/yellow colormaps/dkbluered colormaps/viridis colormaps/inferno colormaps/RdBu colormaps/BrBG '/construction/science/h5utils/stage/usr/local/share/h5utils/colormaps' ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for h5utils-1.13.1_5 file sizes/checksums [36]: 0% file sizes/checksums [36]: 100% packing files [36]: 0% packing files [36]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:00 TOTAL TIME 00:00:24