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###
### Running command:
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### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL Rgraphviz
###
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* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'Rgraphviz' ...
** using staged installation
configure.win: loading site script /usr/local/etc/config.site
configure.win: Using bundled Graphviz.
configure.win: Searching for the compilers specified by R.
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.exe
checking for suffix of executables... .exe
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 gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking how to run the C preprocessor... gcc -E
checking whether we are using the GNU C++ compiler... yes
checking whether g++ -std=gnu++17 accepts -g... yes
configure.win: Preparing to compile Graphviz.
configure.win: Configuring bundled Graphviz.
checking build system type... x86_64-w64-mingw32
checking host system type... x86_64-w64-mingw32
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking for style of include used by make... GNU
checking for x86_64-w64-mingw32-gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.exe
checking for suffix of executables... .exe
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 gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking dependency style of gcc... gcc3
checking for library containing strerror... none required
checking for flex... no
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checking for gawk... (cached) gawk
checking whether ln -s works... no, using cp -pR
checking for sed... sed
checking for grep... grep
checking for sort... sort
checking for groff... groff
checking for ps2pdf... ps2pdf
checking for pstopdf... (cached) ps2pdf
checking for x86_64-w64-mingw32-pkg-config... no
checking for pkg-config... /x86_64-w64-mingw32.static.posix/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for tclsh8.6... no
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checking whether gcc and cc understand -c and -o together... yes
checking whether we are using the GNU C++ compiler... yes
checking whether g++ -std=gnu++17 accepts -g... yes
checking dependency style of g++ -std=gnu++17... gcc3
checking for x86_64-w64-mingw32-gcc... x86_64-w64-mingw32-gcc
checking whether we are using the GNU Objective C compiler... yes
checking whether x86_64-w64-mingw32-gcc accepts -g... yes
checking dependency style of x86_64-w64-mingw32-gcc... gcc3
checking for inline... inline
checking for windres... windres
checking for an ANSI C-conforming const... yes
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... grep
checking for egrep... grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
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checking stddef.h usability... yes
checking stddef.h presence... yes
checking for stddef.h... yes
checking for stddef.h... (cached) yes
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checking for stdint.h... (cached) yes
checking malloc.h usability... yes
checking malloc.h presence... yes
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checking fcntl.h usability... yes
checking fcntl.h presence... yes
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checking search.h usability... yes
checking search.h presence... yes
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checking getopt.h usability... yes
checking getopt.h presence... yes
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checking values.h usability... no
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checking float.h usability... yes
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checking limits.h usability... yes
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checking setjmp.h usability... yes
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checking sys/time.h usability... yes
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checking whether time.h and sys/time.h may both be included... yes
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checking for library containing opendir... none required
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checking for fgrep... grep -F
checking for ld used by gcc... /x86_64-w64-mingw32.static.posix/bin/ld
checking if the linker (/x86_64-w64-mingw32.static.posix/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /c/Strawberry/c/bin/nm -B
checking the name lister (/c/Strawberry/c/bin/nm -B) interface... BSD nm
checking the maximum length of command line arguments... 8192
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking for /x86_64-w64-mingw32.static.posix/bin/ld option to reload object files... -r
checking for x86_64-w64-mingw32-objdump... no
checking for objdump... objdump
checking how to recognize dependent libraries... file_magic ^x86 archive import|^x86 DLL
checking for x86_64-w64-mingw32-ar... no
checking for ar... ar
checking for x86_64-w64-mingw32-strip... no
checking for strip... strip
checking for x86_64-w64-mingw32-ranlib... no
checking for ranlib... ranlib
checking command to parse /c/Strawberry/c/bin/nm -B output from gcc object... ok
checking for dlfcn.h... yes
checking whether we are using the GNU C++ compiler... (cached) yes
checking whether g++ -std=gnu++17 accepts -g... (cached) yes
checking dependency style of g++ -std=gnu++17... (cached) gcc3
checking how to run the C++ preprocessor... g++ -std=gnu++17 -E
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -DDLL_EXPORT -DPIC
checking if gcc PIC flag -DDLL_EXPORT -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/x86_64-w64-mingw32.static.posix/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... Win32 ld.exe
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... no
checking whether to build static libraries... yes
checking for ld used by g++ -std=gnu++17... /x86_64-w64-mingw32.static.posix/bin/ld
checking if the linker (/x86_64-w64-mingw32.static.posix/bin/ld) is GNU ld... yes
checking whether the g++ -std=gnu++17 linker (/x86_64-w64-mingw32.static.posix/bin/ld) supports shared libraries... yes
checking for g++ -std=gnu++17 option to produce PIC... -DDLL_EXPORT -DPIC
checking if g++ -std=gnu++17 PIC flag -DDLL_EXPORT -DPIC works... yes
checking if g++ -std=gnu++17 static flag -static works... yes
checking if g++ -std=gnu++17 supports -c -o file.o... yes
checking if g++ -std=gnu++17 supports -c -o file.o... (cached) yes
checking whether the g++ -std=gnu++17 linker (/x86_64-w64-mingw32.static.posix/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... Win32 ld.exe
checking how to hardcode library paths into programs... immediate
checking which extension is used for runtime loadable modules... .dll
checking which variable specifies run-time module search path... PATH
checking for the default library search path... /lib /usr/lib
checking for library containing dlopen... -ldl
checking for dlerror... yes
checking for shl_load... no
checking for shl_load in -ldld... no
checking whether cygwin_conv_path is declared... no
checking for dld_link in -ldld... no
checking for _ prefix in compiled symbols... no
checking whether deplibs are loaded by dlopen... unknown
checking for argz.h... no
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checking whether libtool supports -dlopen/-dlpreopen... yes
checking for ltdl.h... yes
checking whether lt_dlinterface_register is declared... yes
checking for lt_dladvise_preload in -lltdl... yes
checking where to find libltdl headers...
checking where to find libltdl library... -lltdl
checking for unistd.h... (cached) yes
checking for dl.h... no
checking for sys/dl.h... no
checking for dld.h... no
checking for mach-o/dyld.h... no
checking for dirent.h... yes
checking for closedir... yes
checking for opendir... yes
checking for readdir... yes
checking for strlcat... no
checking for strlcpy... no
checking for X... disabled
configure: WARNING: X11 not available.
checking tcl.h usability... no
checking tcl.h presence... no
checking for tcl.h... no
configure: WARNING: Unable to find header tcl.h. The Tcl packages will not be built
configure: WARNING: No Tcl. The Tk packages will not be built either
checking for connect... no
checking for main in -lsocket... no
checking for accept... no
checking for gethostbyname... no
checking for main in -lnsl... no
checking for main in -lXpm... no
configure: WARNING: Optional Xpm library not available
checking X11/Intrinsic.h usability... no
checking X11/Intrinsic.h presence... no
checking for X11/Intrinsic.h... no
checking for X11/Xaw/Text.h... no
configure: WARNING: Optional Xaw library not available - missing headers
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking for main in -lz... yes
checking for deflateBound... no
checking for GDK_PIXBUF... yes
checking for GTK... yes
checking for GTKGL... no
checking for GTKGLEXT... no
checking for GLADE... no
checking for qmake-qt4... no
checking for qmake-qt3... no
checking for qmake... no
checking for sincos... yes
checking if FILE struct contains _cnt... no
checking if FILE struct contains _r... no
checking if FILE struct contains _next... no
checking if FILE struct contains _IO_read_end... no
checking if errno externs are declared... no
checking if getopt externs are declared... yes
checking if intptr_t is declared... yes
checking if assert needs __eprintf... no
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating lib/Makefile
config.status: creating lib/cdt/Makefile
config.status: creating lib/cdt/libcdt.pc
config.status: creating lib/graph/Makefile
config.status: creating lib/graph/libgraph.pc
config.status: creating lib/rbtree/Makefile
config.status: creating lib/pathplan/Makefile
config.status: creating lib/pathplan/libpathplan.pc
config.status: creating lib/dotgen/Makefile
config.status: creating lib/neatogen/Makefile
config.status: creating lib/fdpgen/Makefile
config.status: creating lib/sparse/Makefile
config.status: creating lib/sfdpgen/Makefile
config.status: creating lib/osage/Makefile
config.status: creating lib/circogen/Makefile
config.status: creating lib/twopigen/Makefile
config.status: creating lib/patchwork/Makefile
config.status: creating lib/pack/Makefile
config.status: creating lib/ortho/Makefile
config.status: creating lib/common/Makefile
config.status: creating lib/vpsc/Makefile
config.status: creating lib/gvc/Makefile
config.status: creating lib/gvc/libgvc.pc
config.status: creating lib/xdot/Makefile
config.status: creating lib/xdot/libxdot.pc
config.status: creating plugin/Makefile
config.status: creating plugin/core/Makefile
config.status: creating plugin/dot_layout/Makefile
config.status: creating plugin/neato_layout/Makefile
config.status: creating graphviz.spec
config.status: creating Doxyfile
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
=== configuring in libltdl (/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl)
configure: running /bin/sh ./configure --disable-option-checking '--prefix=/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt' '--host=x86_64-w64-mingw32' '--build=x86_64-w64-mingw32' 'CC=gcc' 'CXX=g++ -std=gnu++17' 'CFLAGS=-fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign' 'CXXFLAGS=-O2 -Wall -mfpmath=sse -msse2 -mstackrealign' 'LDFLAGS=' '--libdir=/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib' '--includedir=/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include' '--with-cgraph=no' '--enable-swig=no' '--enable-static' '--disable-shared' '--with-pic' '--with-libgd=no' '--disable-ltdl' '--without-x' '--without-expat' '--without-devil' '--without-rsvg' '--without-ghostscript' '--without-visio' '--without-pangocairo' '--without-lasi' '--without-glitz' '--without-freetype2' '--without-fontconfig' '--without-rpat' '--without-glut' '--without-gts' '--without-png' '--without-tcl' '--without-jpeg' 'build_alias=x86_64-w64-mingw32' 'host_alias=x86_64-w64-mingw32' 'R_LIBS=E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-Rgraphviz/00new' --cache-file=/dev/null --srcdir=.
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking build system type... x86_64-w64-mingw32
checking host system type... x86_64-w64-mingw32
checking for style of include used by make... GNU
checking for x86_64-w64-mingw32-gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.exe
checking for suffix of executables... .exe
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 gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking dependency style of gcc... gcc3
checking for a sed that does not truncate output... sed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for fgrep... /usr/bin/grep -F
checking for ld used by gcc... /x86_64-w64-mingw32.static.posix/bin/ld
checking if the linker (/x86_64-w64-mingw32.static.posix/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /c/Strawberry/c/bin/nm -B
checking the name lister (/c/Strawberry/c/bin/nm -B) interface... BSD nm
checking whether ln -s works... no, using cp -pR
checking the maximum length of command line arguments... 8192
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking for /x86_64-w64-mingw32.static.posix/bin/ld option to reload object files... -r
checking for x86_64-w64-mingw32-objdump... no
checking for objdump... objdump
checking how to recognize dependent libraries... file_magic ^x86 archive import|^x86 DLL
checking for x86_64-w64-mingw32-ar... no
checking for ar... ar
checking for x86_64-w64-mingw32-strip... no
checking for strip... strip
checking for x86_64-w64-mingw32-ranlib... no
checking for ranlib... ranlib
checking command to parse /c/Strawberry/c/bin/nm -B output from gcc object... ok
checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for x86_64-w64-mingw32-as... no
checking for as... as
checking for x86_64-w64-mingw32-dlltool... no
checking for dlltool... dlltool
checking for x86_64-w64-mingw32-objdump... objdump
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -DDLL_EXPORT -DPIC
checking if gcc PIC flag -DDLL_EXPORT -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/x86_64-w64-mingw32.static.posix/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... Win32 ld.exe
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... no
checking whether to build static libraries... yes
checking which extension is used for runtime loadable modules... .dll
checking which variable specifies run-time module search path... PATH
checking for the default library search path... /lib /usr/lib
checking for library containing dlopen... -ldl
checking for dlerror... yes
checking for shl_load... no
checking for shl_load in -ldld... no
checking whether cygwin_conv_path is declared... no
checking for dld_link in -ldld... no
checking for _ prefix in compiled symbols... no
checking whether deplibs are loaded by dlopen... unknown
checking for argz.h... no
checking for error_t... no
checking for argz_add... no
checking for argz_append... no
checking for argz_count... no
checking for argz_create_sep... no
checking for argz_insert... no
checking for argz_next... no
checking for argz_stringify... no
checking whether libtool supports -dlopen/-dlpreopen... yes
checking for unistd.h... (cached) yes
checking for dl.h... no
checking for sys/dl.h... no
checking for dld.h... no
checking for mach-o/dyld.h... no
checking for dirent.h... yes
checking for closedir... yes
checking for opendir... yes
checking for readdir... yes
checking for strlcat... no
checking for strlcpy... no
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
----------------------------------------------------------------
graphviz-2.28.0 will be compiled with the following:
options:
cgraph: No (disabled by default - experimental)
digcola: Yes
expat: No (disabled)
fontconfig: No (disabled)
freetype: No (disabled)
glut: No (disabled)
gts: No (disabled)
ipsepcola: No (disabled by default - C++ portability issues)
ltdl: No (disabled)
ortho: Yes
png: No (disabled)
jpeg: No (disabled)
sfdp: Yes
shared: No (disabled)
static: Yes
qt: No (qmake not found)
commands:
dot: Yes (always enabled)
neato: Yes (always enabled)
fdp: Yes (always enabled)
circo: Yes (always enabled)
twopi: Yes (always enabled)
gvpr: Yes (always enabled)
gvmap: Yes (always enabled)
lefty: No (missing Xaw headers)
smyrna: No (disabled by default - experimental)
gvedit: No (qmake not found)
plugin libraries:
dot_layout: Yes (always enabled)
neato_layout: Yes (always enabled)
core: Yes (always enabled)
devil: No (disabled)
gd: No (disabled)
gdiplus: No (disabled by default - Windows only)
gdk_pixbuf: Yes
ghostscript: No (disabled)
glitz: No (disabled by default - incomplete)
gtk: Yes
lasi: No (disabled)
ming: No (disabled by default - incomplete)
pangocairo: No (disabled)
quartz: No (disabled by default - Mac only)
rsvg: No (disabled)
visio: No (disabled by default - experimental)
xlib: No (disabled or unavailable)
language extensions:
gv_sharp: No (swig not available)
gv_go: No (disabled by default - experimental)
gv_guile: No (swig not available)
gv_io: No (disabled by default - no swig support yet)
gv_java: No (swig not available)
gv_lua: No (swig not available)
gv_ocaml: No (swig not available)
gv_perl: No (swig not available)
gv_php: No (swig not available)
gv_python: No (swig not available)
gv_python23: No (disabled by default - for multiversion installs)
gv_python24: No (disabled by default - for multiversion installs)
gv_python25: No (disabled by default - for multiversion installs)
gv_python26: No (disabled by default - for multiversion installs)
gv_python27: No (disabled by default - for multiversion installs)
gv_R: No (swig not available)
gv_ruby: No (swig not available)
gv_tcl: No (tcl not available)
tcldot: No (tcl not available)
tclpathplan: No (tcl not available)
gdtclft: No (tcl not available)
tkspline: No (tk not available)
CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/config/missing --run aclocal-1.12 -I m4
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/config/missing: line 52: aclocal-1.12: command not found
WARNING: `aclocal-1.12' is missing on your system. You should only need it if
you modified `acinclude.m4' or `configure.ac'. You might want
to install the `Automake' and `Perl' packages. Grab them from
any GNU archive site.
cd . && /bin/sh /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/config/missing --run automake-1.12 --gnu
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/config/missing: line 52: automake-1.12: command not found
WARNING: `automake-1.12' is missing on your system. You should only need it if
you modified `Makefile.am', `acinclude.m4' or `configure.ac'.
You might want to install the `Automake' and `Perl' packages.
Grab them from any GNU archive site.
CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/config/missing --run autoconf
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/config/missing: line 52: autoconf: command not found
WARNING: `autoconf' is missing on your system. You should only need it if
you modified `configure.ac'. You might want to install the
`Autoconf' and `GNU m4' packages. Grab them from any GNU
archive site.
/bin/sh ./config.status --recheck
running CONFIG_SHELL=/bin/sh /bin/sh ./configure --host=x86_64-w64-mingw32 --build=x86_64-w64-mingw32 CC=gcc CXX=g++ -std=gnu++17 CFLAGS=-fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign CXXFLAGS=-O2 -Wall -mfpmath=sse -msse2 -mstackrealign LDFLAGS= --prefix=/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt --libdir=/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib --includedir=/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include --with-cgraph=no --enable-swig=no --enable-static --disable-shared --with-pic --with-libgd=no --disable-ltdl --without-x --without-expat --without-devil --without-rsvg --without-ghostscript --without-visio --without-pangocairo --without-lasi --without-glitz --without-freetype2 --without-fontconfig --without-rpat --without-glut --without-gts --without-png --without-tcl --without-jpeg build_alias=x86_64-w64-mingw32 host_alias=x86_64-w64-mingw32 R_LIBS=E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-Rgraphviz/00new --no-create --no-recursion
checking build system type... x86_64-w64-mingw32
checking host system type... x86_64-w64-mingw32
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking for style of include used by make... GNU
checking for x86_64-w64-mingw32-gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.exe
checking for suffix of executables... .exe
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 gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking dependency style of gcc... gcc3
checking for library containing strerror... none required
checking for flex... no
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checking for gawk... (cached) gawk
checking whether ln -s works... no, using cp -pR
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checking for ps2pdf... ps2pdf
checking for pstopdf... (cached) ps2pdf
checking for x86_64-w64-mingw32-pkg-config... no
checking for pkg-config... /x86_64-w64-mingw32.static.posix/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for tclsh8.6... no
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checking whether gcc and cc understand -c and -o together... yes
checking whether we are using the GNU C++ compiler... yes
checking whether g++ -std=gnu++17 accepts -g... yes
checking dependency style of g++ -std=gnu++17... gcc3
checking for x86_64-w64-mingw32-gcc... x86_64-w64-mingw32-gcc
checking whether we are using the GNU Objective C compiler... yes
checking whether x86_64-w64-mingw32-gcc accepts -g... yes
checking dependency style of x86_64-w64-mingw32-gcc... gcc3
checking for inline... inline
checking for windres... windres
checking for an ANSI C-conforming const... yes
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... grep
checking for egrep... grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
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checking for strings.h... yes
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checking for unistd.h... yes
checking for mode_t... yes
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checking for ssize_t... yes
checking for uid_t in sys/types.h... no
checking stdarg.h usability... yes
checking stdarg.h presence... yes
checking for stdarg.h... yes
checking stddef.h usability... yes
checking stddef.h presence... yes
checking for stddef.h... yes
checking for stddef.h... (cached) yes
checking for stdlib.h... (cached) yes
checking for stdint.h... (cached) yes
checking malloc.h usability... yes
checking malloc.h presence... yes
checking for malloc.h... yes
checking fcntl.h usability... yes
checking fcntl.h presence... yes
checking for fcntl.h... yes
checking search.h usability... yes
checking search.h presence... yes
checking for search.h... yes
checking getopt.h usability... yes
checking getopt.h presence... yes
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checking pthread.h usability... yes
checking pthread.h presence... yes
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checking values.h usability... no
checking values.h presence... no
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checking float.h usability... yes
checking float.h presence... yes
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checking limits.h usability... yes
checking limits.h presence... yes
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checking termios.h usability... no
checking termios.h presence... no
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checking errno.h usability... yes
checking errno.h presence... yes
checking for errno.h... yes
checking time.h usability... yes
checking time.h presence... yes
checking for time.h... yes
checking for unistd.h... (cached) yes
checking fenv.h usability... yes
checking fenv.h presence... yes
checking for fenv.h... yes
checking for string.h... (cached) yes
checking for strings.h... (cached) yes
checking for inttypes.h... (cached) yes
checking setjmp.h usability... yes
checking setjmp.h presence... yes
checking for setjmp.h... yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking sys/times.h usability... no
checking sys/times.h presence... no
checking for sys/times.h... no
checking for sys/types.h... (cached) yes
checking sys/select.h usability... no
checking sys/select.h presence... no
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checking fpu_control.h usability... no
checking fpu_control.h presence... no
checking for fpu_control.h... no
checking sys/fpu.h usability... no
checking sys/fpu.h presence... no
checking for sys/fpu.h... no
checking sys/socket.h usability... no
checking sys/socket.h presence... no
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checking for sys/stat.h... (cached) yes
checking sys/mman.h usability... no
checking sys/mman.h presence... no
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checking sys/ioctl.h usability... no
checking sys/ioctl.h presence... no
checking for sys/ioctl.h... no
checking sys/inotify.h usability... no
checking sys/inotify.h presence... no
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checking langinfo.h usability... no
checking langinfo.h presence... no
checking for langinfo.h... no
checking libintl.h usability... yes
checking libintl.h presence... yes
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checking crt_externs.h usability... no
checking crt_externs.h presence... no
checking for crt_externs.h... no
checking whether time.h and sys/time.h may both be included... yes
checking for dirent.h that defines DIR... yes
checking for library containing opendir... none required
checking for stdbool.h that conforms to C99... yes
checking for _Bool... yes
checking for socklen_t... no
checking for bool... yes
checking for struct dioattr... no
checking for main in -lm... yes
checking for feenableexcept... no
checking for fesetenv... yes
checking libgen.h usability... yes
checking libgen.h presence... yes
checking for libgen.h... yes
checking for basename in -lgen... no
checking for working alloca.h... no
checking for alloca... yes
checking for lrand48... no
checking for drand48... no
checking for srand48... no
checking for setmode... yes
checking for setenv... no
checking for getenv... yes
checking for __freadable... no
checking for _sysconf... no
checking for getrusage... no
checking for strerror... yes
checking for cbrt... yes
checking for lsqrt... no
checking for vsnprintf... yes
checking for strtoul... yes
checking for strtoll... yes
checking for strtoull... yes
checking for uname... no
checking for memset... yes
checking for nl_langinfo... no
checking for pow... yes
checking for sqrt... yes
checking for strchr... yes
checking for strdup... yes
checking for strerror... (cached) yes
checking for strstr... yes
checking for _NSGetEnviron... no
checking for strcasecmp... yes
checking for strncasecmp... yes
checking for strcasestr... no
checking for a sed that does not truncate output... sed
checking for fgrep... grep -F
checking for ld used by gcc... /x86_64-w64-mingw32.static.posix/bin/ld
checking if the linker (/x86_64-w64-mingw32.static.posix/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /c/Strawberry/c/bin/nm -B
checking the name lister (/c/Strawberry/c/bin/nm -B) interface... BSD nm
checking the maximum length of command line arguments... 8192
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking for /x86_64-w64-mingw32.static.posix/bin/ld option to reload object files... -r
checking for x86_64-w64-mingw32-objdump... no
checking for objdump... objdump
checking how to recognize dependent libraries... file_magic ^x86 archive import|^x86 DLL
checking for x86_64-w64-mingw32-ar... no
checking for ar... ar
checking for x86_64-w64-mingw32-strip... no
checking for strip... strip
checking for x86_64-w64-mingw32-ranlib... no
checking for ranlib... ranlib
checking command to parse /c/Strawberry/c/bin/nm -B output from gcc object... ok
checking for dlfcn.h... yes
checking whether we are using the GNU C++ compiler... (cached) yes
checking whether g++ -std=gnu++17 accepts -g... (cached) yes
checking dependency style of g++ -std=gnu++17... (cached) gcc3
checking how to run the C++ preprocessor... g++ -std=gnu++17 -E
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -DDLL_EXPORT -DPIC
checking if gcc PIC flag -DDLL_EXPORT -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/x86_64-w64-mingw32.static.posix/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... Win32 ld.exe
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... no
checking whether to build static libraries... yes
checking for ld used by g++ -std=gnu++17... /x86_64-w64-mingw32.static.posix/bin/ld
checking if the linker (/x86_64-w64-mingw32.static.posix/bin/ld) is GNU ld... yes
checking whether the g++ -std=gnu++17 linker (/x86_64-w64-mingw32.static.posix/bin/ld) supports shared libraries... yes
checking for g++ -std=gnu++17 option to produce PIC... -DDLL_EXPORT -DPIC
checking if g++ -std=gnu++17 PIC flag -DDLL_EXPORT -DPIC works... yes
checking if g++ -std=gnu++17 static flag -static works... yes
checking if g++ -std=gnu++17 supports -c -o file.o... yes
checking if g++ -std=gnu++17 supports -c -o file.o... (cached) yes
checking whether the g++ -std=gnu++17 linker (/x86_64-w64-mingw32.static.posix/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... Win32 ld.exe
checking how to hardcode library paths into programs... immediate
checking which extension is used for runtime loadable modules... .dll
checking which variable specifies run-time module search path... PATH
checking for the default library search path... /lib /usr/lib
checking for library containing dlopen... -ldl
checking for dlerror... yes
checking for shl_load... no
checking for shl_load in -ldld... no
checking whether cygwin_conv_path is declared... no
checking for dld_link in -ldld... no
checking for _ prefix in compiled symbols... no
checking whether deplibs are loaded by dlopen... unknown
checking for argz.h... no
checking for error_t... no
checking for argz_add... no
checking for argz_append... no
checking for argz_count... no
checking for argz_create_sep... no
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checking for argz_next... no
checking for argz_stringify... no
checking whether libtool supports -dlopen/-dlpreopen... yes
checking for ltdl.h... yes
checking whether lt_dlinterface_register is declared... yes
checking for lt_dladvise_preload in -lltdl... yes
checking where to find libltdl headers...
checking where to find libltdl library... -lltdl
checking for unistd.h... (cached) yes
checking for dl.h... no
checking for sys/dl.h... no
checking for dld.h... no
checking for mach-o/dyld.h... no
checking for dirent.h... yes
checking for closedir... yes
checking for opendir... yes
checking for readdir... yes
checking for strlcat... no
checking for strlcpy... no
checking for X... disabled
configure: WARNING: X11 not available.
checking tcl.h usability... no
checking tcl.h presence... no
checking for tcl.h... no
configure: WARNING: Unable to find header tcl.h. The Tcl packages will not be built
configure: WARNING: No Tcl. The Tk packages will not be built either
checking for connect... no
checking for main in -lsocket... no
checking for accept... no
checking for gethostbyname... no
checking for main in -lnsl... no
checking for main in -lXpm... no
configure: WARNING: Optional Xpm library not available
checking X11/Intrinsic.h usability... no
checking X11/Intrinsic.h presence... no
checking for X11/Intrinsic.h... no
checking for X11/Xaw/Text.h... no
configure: WARNING: Optional Xaw library not available - missing headers
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking for main in -lz... yes
checking for deflateBound... no
checking for GDK_PIXBUF... yes
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checking for GTKGL... no
checking for GTKGLEXT... no
checking for GLADE... no
checking for qmake-qt4... no
checking for qmake-qt3... no
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checking for sincos... yes
checking if FILE struct contains _cnt... no
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checking if FILE struct contains _IO_read_end... no
checking if errno externs are declared... no
checking if getopt externs are declared... yes
checking if intptr_t is declared... yes
checking if assert needs __eprintf... no
checking that generated files are newer than configure... done
configure: creating ./config.status
----------------------------------------------------------------
graphviz-2.28.0 will be compiled with the following:
options:
cgraph: No (disabled by default - experimental)
digcola: Yes
expat: No (disabled)
fontconfig: No (disabled)
freetype: No (disabled)
glut: No (disabled)
gts: No (disabled)
ipsepcola: No (disabled by default - C++ portability issues)
ltdl: No (disabled)
ortho: Yes
png: No (disabled)
jpeg: No (disabled)
sfdp: Yes
shared: No (disabled)
static: Yes
qt: No (qmake not found)
commands:
dot: Yes (always enabled)
neato: Yes (always enabled)
fdp: Yes (always enabled)
circo: Yes (always enabled)
twopi: Yes (always enabled)
gvpr: Yes (always enabled)
gvmap: Yes (always enabled)
lefty: No (missing Xaw headers)
smyrna: No (disabled by default - experimental)
gvedit: No (qmake not found)
plugin libraries:
dot_layout: Yes (always enabled)
neato_layout: Yes (always enabled)
core: Yes (always enabled)
devil: No (disabled)
gd: No (disabled)
gdiplus: No (disabled by default - Windows only)
gdk_pixbuf: Yes
ghostscript: No (disabled)
glitz: No (disabled by default - incomplete)
gtk: Yes
lasi: No (disabled)
ming: No (disabled by default - incomplete)
pangocairo: No (disabled)
quartz: No (disabled by default - Mac only)
rsvg: No (disabled)
visio: No (disabled by default - experimental)
xlib: No (disabled or unavailable)
language extensions:
gv_sharp: No (swig not available)
gv_go: No (disabled by default - experimental)
gv_guile: No (swig not available)
gv_io: No (disabled by default - no swig support yet)
gv_java: No (swig not available)
gv_lua: No (swig not available)
gv_ocaml: No (swig not available)
gv_perl: No (swig not available)
gv_php: No (swig not available)
gv_python: No (swig not available)
gv_python23: No (disabled by default - for multiversion installs)
gv_python24: No (disabled by default - for multiversion installs)
gv_python25: No (disabled by default - for multiversion installs)
gv_python26: No (disabled by default - for multiversion installs)
gv_python27: No (disabled by default - for multiversion installs)
gv_R: No (swig not available)
gv_ruby: No (swig not available)
gv_tcl: No (tcl not available)
tcldot: No (tcl not available)
tclpathplan: No (tcl not available)
gdtclft: No (tcl not available)
tkspline: No (tk not available)
/bin/sh ./config.status
config.status: creating Makefile
config.status: creating lib/Makefile
config.status: creating lib/cdt/Makefile
config.status: creating lib/cdt/libcdt.pc
config.status: creating lib/graph/Makefile
config.status: creating lib/graph/libgraph.pc
config.status: creating lib/rbtree/Makefile
config.status: creating lib/pathplan/Makefile
config.status: creating lib/pathplan/libpathplan.pc
config.status: creating lib/dotgen/Makefile
config.status: creating lib/neatogen/Makefile
config.status: creating lib/fdpgen/Makefile
config.status: creating lib/sparse/Makefile
config.status: creating lib/sfdpgen/Makefile
config.status: creating lib/osage/Makefile
config.status: creating lib/circogen/Makefile
config.status: creating lib/twopigen/Makefile
config.status: creating lib/patchwork/Makefile
config.status: creating lib/pack/Makefile
config.status: creating lib/ortho/Makefile
config.status: creating lib/common/Makefile
config.status: creating lib/vpsc/Makefile
config.status: creating lib/gvc/Makefile
config.status: creating lib/gvc/libgvc.pc
config.status: creating lib/xdot/Makefile
config.status: creating lib/xdot/libxdot.pc
config.status: creating plugin/Makefile
config.status: creating plugin/core/Makefile
config.status: creating plugin/dot_layout/Makefile
config.status: creating plugin/neato_layout/Makefile
config.status: creating graphviz.spec
config.status: creating Doxyfile
config.status: creating config.h
config.status: config.h is unchanged
config.status: executing depfiles commands
config.status: executing libtool commands
(CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/config/missing --run autoheader)
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/config/missing: line 52: autoheader: command not found
WARNING: `autoheader' is missing on your system. You should only need it if
you modified `acconfig.h' or `configure.ac'. You might want
to install the `Autoconf' and `GNU m4' packages. Grab them
from any GNU archive site.
rm -f stamp-h1
touch config.h.in
cd . && /bin/sh ./config.status config.h
config.status: creating config.h
config.status: config.h is unchanged
grep 'PACKAGE\|VERSION\|GVPLUGIN' config.h > graphviz_version.h
make install-recursive
make[1]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz'
Making install in libltdl
make[2]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl'
CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl/config/missing --run aclocal-1.12 -I m4
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl/config/missing: line 52: aclocal-1.12: command not found
WARNING: `aclocal-1.12' is missing on your system. You should only need it if
you modified `acinclude.m4' or `configure.ac'. You might want
to install the `Automake' and `Perl' packages. Grab them from
any GNU archive site.
cd . && /bin/sh /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl/config/missing --run automake-1.12 --foreign
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl/config/missing: line 52: automake-1.12: command not found
WARNING: `automake-1.12' is missing on your system. You should only need it if
you modified `Makefile.am', `acinclude.m4' or `configure.ac'.
You might want to install the `Automake' and `Perl' packages.
Grab them from any GNU archive site.
CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl/config/missing --run autoconf
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl/config/missing: line 52: autoconf: command not found
WARNING: `autoconf' is missing on your system. You should only need it if
you modified `configure.ac'. You might want to install the
`Autoconf' and `GNU m4' packages. Grab them from any GNU
archive site.
/bin/sh ./config.status --recheck
running CONFIG_SHELL=/bin/sh /bin/sh ./configure --disable-option-checking --prefix=/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt --host=x86_64-w64-mingw32 --build=x86_64-w64-mingw32 CC=gcc CXX=g++ -std=gnu++17 CFLAGS=-fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign CXXFLAGS=-O2 -Wall -mfpmath=sse -msse2 -mstackrealign LDFLAGS= --libdir=/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib --includedir=/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include --with-cgraph=no --enable-swig=no --enable-static --disable-shared --with-pic --with-libgd=no --disable-ltdl --without-x --without-expat --without-devil --without-rsvg --without-ghostscript --without-visio --without-pangocairo --without-lasi --without-glitz --without-freetype2 --without-fontconfig --without-rpat --without-glut --without-gts --without-png --without-tcl --without-jpeg build_alias=x86_64-w64-mingw32 host_alias=x86_64-w64-mingw32 R_LIBS=E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-Rgraphviz/00new --cache-file=/dev/null --srcdir=. --no-create --no-recursion
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking build system type... x86_64-w64-mingw32
checking host system type... x86_64-w64-mingw32
checking for style of include used by make... GNU
checking for x86_64-w64-mingw32-gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.exe
checking for suffix of executables... .exe
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 gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking dependency style of gcc... gcc3
checking for a sed that does not truncate output... sed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for fgrep... /usr/bin/grep -F
checking for ld used by gcc... /x86_64-w64-mingw32.static.posix/bin/ld
checking if the linker (/x86_64-w64-mingw32.static.posix/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /c/Strawberry/c/bin/nm -B
checking the name lister (/c/Strawberry/c/bin/nm -B) interface... BSD nm
checking whether ln -s works... no, using cp -pR
checking the maximum length of command line arguments... 8192
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking for /x86_64-w64-mingw32.static.posix/bin/ld option to reload object files... -r
checking for x86_64-w64-mingw32-objdump... no
checking for objdump... objdump
checking how to recognize dependent libraries... file_magic ^x86 archive import|^x86 DLL
checking for x86_64-w64-mingw32-ar... no
checking for ar... ar
checking for x86_64-w64-mingw32-strip... no
checking for strip... strip
checking for x86_64-w64-mingw32-ranlib... no
checking for ranlib... ranlib
checking command to parse /c/Strawberry/c/bin/nm -B output from gcc object... ok
checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for x86_64-w64-mingw32-as... no
checking for as... as
checking for x86_64-w64-mingw32-dlltool... no
checking for dlltool... dlltool
checking for x86_64-w64-mingw32-objdump... objdump
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -DDLL_EXPORT -DPIC
checking if gcc PIC flag -DDLL_EXPORT -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/x86_64-w64-mingw32.static.posix/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... Win32 ld.exe
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... no
checking whether to build static libraries... yes
checking which extension is used for runtime loadable modules... .dll
checking which variable specifies run-time module search path... PATH
checking for the default library search path... /lib /usr/lib
checking for library containing dlopen... -ldl
checking for dlerror... yes
checking for shl_load... no
checking for shl_load in -ldld... no
checking whether cygwin_conv_path is declared... no
checking for dld_link in -ldld... no
checking for _ prefix in compiled symbols... no
checking whether deplibs are loaded by dlopen... unknown
checking for argz.h... no
checking for error_t... no
checking for argz_add... no
checking for argz_append... no
checking for argz_count... no
checking for argz_create_sep... no
checking for argz_insert... no
checking for argz_next... no
checking for argz_stringify... no
checking whether libtool supports -dlopen/-dlpreopen... yes
checking for unistd.h... (cached) yes
checking for dl.h... no
checking for sys/dl.h... no
checking for dld.h... no
checking for mach-o/dyld.h... no
checking for dirent.h... yes
checking for closedir... yes
checking for opendir... yes
checking for readdir... yes
checking for strlcat... no
checking for strlcpy... no
checking that generated files are newer than configure... done
configure: creating ./config.status
/bin/sh ./config.status
config.status: creating Makefile
config.status: creating config.h
config.status: config.h is unchanged
config.status: executing depfiles commands
config.status: executing libtool commands
/bin/sh /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl/config/install-sh -d .
cp ./argz_.h argz.h-t
mv argz.h-t argz.h
make install-am
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl'
/bin/sh ./libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT dlopen.lo -MD -MP -MF .deps/dlopen.Tpo -c -o dlopen.lo `test -f 'loaders/dlopen.c' || echo './'`loaders/dlopen.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT dlopen.lo -MD -MP -MF .deps/dlopen.Tpo -c loaders/dlopen.c -o dlopen.o
mv -f .deps/dlopen.Tpo .deps/dlopen.Plo
/bin/sh ./libtool --tag=CC --mode=link gcc -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -module -avoid-version -o dlopen.la dlopen.lo -ldl -ldl
libtool: link: ar cru .libs/dlopen.a dlopen.o
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/dlopen.a
libtool: link: ( cd ".libs" && rm -f "dlopen.la" && cp -pR "../dlopen.la" "dlopen.la" )
/bin/sh ./libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT loadlibrary.lo -MD -MP -MF .deps/loadlibrary.Tpo -c -o loadlibrary.lo `test -f 'loaders/loadlibrary.c' || echo './'`loaders/loadlibrary.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT loadlibrary.lo -MD -MP -MF .deps/loadlibrary.Tpo -c loaders/loadlibrary.c -o loadlibrary.o
In file included from libltdl/lt__private.h:57,
from loaders/loadlibrary.c:32:
loaders/loadlibrary.c: In function 'vm_open':
./ltdl.h:44:27: warning: the address of 'wpath' will always evaluate as 'true' [-Waddress]
44 | #define LT_STRLEN(s) (((s) && (s)[0]) ? strlen (s) : 0)
| ^
loaders/loadlibrary.c:159:19: note: in expansion of macro 'LT_STRLEN'
159 | len = LT_STRLEN (wpath);
| ^~~~~~~~~
mv -f .deps/loadlibrary.Tpo .deps/loadlibrary.Plo
/bin/sh ./libtool --tag=CC --mode=link gcc -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -module -avoid-version -o loadlibrary.la loadlibrary.lo -ldl
libtool: link: ar cru .libs/loadlibrary.a loadlibrary.o
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/loadlibrary.a
libtool: link: ( cd ".libs" && rm -f "loadlibrary.la" && cp -pR "../loadlibrary.la" "loadlibrary.la" )
/bin/sh ./libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-preopen.lo -MD -MP -MF .deps/libltdlc_la-preopen.Tpo -c -o libltdlc_la-preopen.lo `test -f 'loaders/preopen.c' || echo './'`loaders/preopen.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-preopen.lo -MD -MP -MF .deps/libltdlc_la-preopen.Tpo -c loaders/preopen.c -o libltdlc_la-preopen.o
mv -f .deps/libltdlc_la-preopen.Tpo .deps/libltdlc_la-preopen.Plo
/bin/sh ./libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-lt__alloc.lo -MD -MP -MF .deps/libltdlc_la-lt__alloc.Tpo -c -o libltdlc_la-lt__alloc.lo `test -f 'lt__alloc.c' || echo './'`lt__alloc.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-lt__alloc.lo -MD -MP -MF .deps/libltdlc_la-lt__alloc.Tpo -c lt__alloc.c -o libltdlc_la-lt__alloc.o
mv -f .deps/libltdlc_la-lt__alloc.Tpo .deps/libltdlc_la-lt__alloc.Plo
/bin/sh ./libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-lt_dlloader.lo -MD -MP -MF .deps/libltdlc_la-lt_dlloader.Tpo -c -o libltdlc_la-lt_dlloader.lo `test -f 'lt_dlloader.c' || echo './'`lt_dlloader.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-lt_dlloader.lo -MD -MP -MF .deps/libltdlc_la-lt_dlloader.Tpo -c lt_dlloader.c -o libltdlc_la-lt_dlloader.o
mv -f .deps/libltdlc_la-lt_dlloader.Tpo .deps/libltdlc_la-lt_dlloader.Plo
/bin/sh ./libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-lt_error.lo -MD -MP -MF .deps/libltdlc_la-lt_error.Tpo -c -o libltdlc_la-lt_error.lo `test -f 'lt_error.c' || echo './'`lt_error.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-lt_error.lo -MD -MP -MF .deps/libltdlc_la-lt_error.Tpo -c lt_error.c -o libltdlc_la-lt_error.o
mv -f .deps/libltdlc_la-lt_error.Tpo .deps/libltdlc_la-lt_error.Plo
/bin/sh ./libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-ltdl.lo -MD -MP -MF .deps/libltdlc_la-ltdl.Tpo -c -o libltdlc_la-ltdl.lo `test -f 'ltdl.c' || echo './'`ltdl.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-ltdl.lo -MD -MP -MF .deps/libltdlc_la-ltdl.Tpo -c ltdl.c -o libltdlc_la-ltdl.o
In file included from libltdl/lt__private.h:51,
from ltdl.c:32:
ltdl.c: In function 'try_dlopen':
./ltdl.h:44:27: warning: the address of 'libext' will always evaluate as 'true' [-Waddress]
44 | #define LT_STRLEN(s) (((s) && (s)[0]) ? strlen (s) : 0)
| ^
libltdl/lt__alloc.h:38:51: note: in definition of macro 'MALLOC'
38 | #define MALLOC(tp, n) (tp*) lt__malloc((n) * sizeof(tp))
| ^
ltdl.c:1268:59: note: in expansion of macro 'LT_STRLEN'
1268 | archive_name = MALLOC (char, LT_STRLEN (name) + LT_STRLEN (libext) + 2);
| ^~~~~~~~~
mv -f .deps/libltdlc_la-ltdl.Tpo .deps/libltdlc_la-ltdl.Plo
/bin/sh ./libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-slist.lo -MD -MP -MF .deps/libltdlc_la-slist.Tpo -c -o libltdlc_la-slist.lo `test -f 'slist.c' || echo './'`slist.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -DLTDLOPEN=libltdlc "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT libltdlc_la-slist.lo -MD -MP -MF .deps/libltdlc_la-slist.Tpo -c slist.c -o libltdlc_la-slist.o
mv -f .deps/libltdlc_la-slist.Tpo .deps/libltdlc_la-slist.Plo
/bin/sh ./libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT argz.lo -MD -MP -MF .deps/argz.Tpo -c -o argz.lo argz.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT argz.lo -MD -MP -MF .deps/argz.Tpo -c argz.c -o argz.o
mv -f .deps/argz.Tpo .deps/argz.Plo
/bin/sh ./libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -DLT_CONFIG_H='<config.h>' -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT lt__strl.lo -MD -MP -MF .deps/lt__strl.Tpo -c -o lt__strl.lo lt__strl.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. "-DLT_CONFIG_H=<config.h>" -DLTDL -I. -I. -Ilibltdl -I./libltdl -I./libltdl -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -MT lt__strl.lo -MD -MP -MF .deps/lt__strl.Tpo -c lt__strl.c -o lt__strl.o
mv -f .deps/lt__strl.Tpo .deps/lt__strl.Plo
/bin/sh ./libtool --tag=CC --mode=link gcc -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -no-undefined -dlpreopen dlopen.la -dlpreopen loadlibrary.la -o libltdlc.la libltdlc_la-preopen.lo libltdlc_la-lt__alloc.lo libltdlc_la-lt_dlloader.lo libltdlc_la-lt_error.lo libltdlc_la-ltdl.lo libltdlc_la-slist.lo argz.lo lt__strl.lo -ldl
libtool: link: rm -f .libs/libltdlc.nm .libs/libltdlc.nmS .libs/libltdlc.nmT
libtool: link: (cd .libs && gcc -fcommon -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c -fno-builtin -DDLL_EXPORT -DPIC "libltdlcS.c")
libtool: link: rm -f ".libs/libltdlcS.c" ".libs/libltdlc.nm" ".libs/libltdlc.nmS" ".libs/libltdlc.nmT"
libtool: link: (cd .libs/libltdlc.lax/dlopen.a && ar x "/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl/./.libs/dlopen.a")
libtool: link: (cd .libs/libltdlc.lax/loadlibrary.a && ar x "/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl/./.libs/loadlibrary.a")
libtool: link: ar cru .libs/libltdlc.a libltdlc_la-preopen.o libltdlc_la-lt__alloc.o libltdlc_la-lt_dlloader.o libltdlc_la-lt_error.o libltdlc_la-ltdl.o libltdlc_la-slist.o argz.o lt__strl.o .libs/libltdlcS.o .libs/libltdlc.lax/dlopen.a/dlopen.o .libs/libltdlc.lax/loadlibrary.a/loadlibrary.o
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
libtool: link: ranlib .libs/libltdlc.a
libtool: link: rm -fr .libs/libltdlc.lax
libtool: link: ( cd ".libs" && rm -f "libltdlc.la" && cp -pR "../libltdlc.la" "libltdlc.la" )
(CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/sh /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl/config/missing --run autoheader)
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl/config/missing: line 52: autoheader: command not found
WARNING: `autoheader' is missing on your system. You should only need it if
you modified `acconfig.h' or `configure.ac'. You might want
to install the `Autoconf' and `GNU m4' packages. Grab them
from any GNU archive site.
rm -f stamp-h1
touch config-h.in
cd . && /bin/sh ./config.status config.h
config.status: creating config.h
config.status: config.h is unchanged
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl'
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl'
make[2]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/libltdl'
Making install in lib
make[2]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib'
Making install in cdt
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/cdt'
CC dtclose.lo
CC dtdisc.lo
dtdisc.c:13:16: warning: function declaration isn't a prototype [-Wstrict-prototypes]
13 | static Void_t* dtmemory(dt, addr, size, disc)
| ^~~~~~~~
CC dtextract.lo
CC dtflatten.lo
CC dthash.lo
dthash.c:15:13: warning: function declaration isn't a prototype [-Wstrict-prototypes]
15 | static void dthtab(dt)
| ^~~~~~
dthash.c:81:16: warning: function declaration isn't a prototype [-Wstrict-prototypes]
81 | static Void_t* dthash(dt,obj,type)
| ^~~~~~
dthash.c: In function 'dthash':
dthash.c:306:34: warning: 'r' may be used uninitialized [-Wmaybe-uninitialized]
306 | (*dt->memoryf)(dt,(Void_t*)r,0,disc);
| ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
dthash.c:87:30: note: 'r' was declared here
87 | reg Dtlink_t *t, *r, *p;
| ^
CC dtlist.lo
dtlist.c:11:16: warning: function declaration isn't a prototype [-Wstrict-prototypes]
11 | static Void_t* dtlist(dt, obj, type)
| ^~~~~~
CC dtmethod.lo
CC dtopen.lo
CC dtrenew.lo
CC dtrestore.lo
CC dtsize.lo
dtsize.c:11:12: warning: function declaration isn't a prototype [-Wstrict-prototypes]
11 | static int treecount(e)
| ^~~~~~~~~
CC dtstat.lo
dtstat.c:11:13: warning: function declaration isn't a prototype [-Wstrict-prototypes]
11 | static void dttstat(ds,root,depth,level)
| ^~~~~~~
dtstat.c:31:13: warning: function declaration isn't a prototype [-Wstrict-prototypes]
31 | static void dthstat(data, ds, count)
| ^~~~~~~
CC dtstrhash.lo
CC dttree.lo
dttree.c:14:16: warning: function declaration isn't a prototype [-Wstrict-prototypes]
14 | static Void_t* dttree(dt,obj,type)
| ^~~~~~
dttree.c: In function 'dttree':
dttree.c:294:43: warning: 'me' may be used uninitialized [-Wmaybe-uninitialized]
294 | me->right = link.left;
dttree.c:23:34: note: 'me' was declared here
23 | Dtlink_t *l, *r, *me, link;
| ^~
CC dttreeset.lo
dttreeset.c:11:18: warning: function declaration isn't a prototype [-Wstrict-prototypes]
11 | static Dtlink_t* treebalance(list, size)
| ^~~~~~~~~~~
CC dtview.lo
dtview.c:12:16: warning: function declaration isn't a prototype [-Wstrict-prototypes]
12 | static Void_t* dtvsearch(dt,obj,type)
| ^~~~~~~~~
dtview.c: In function 'dtvsearch':
dtview.c:20:30: warning: variable 'lk' set but not used [-Wunused-but-set-variable]
20 | int cmp, lk, sz, ky;
| ^~
CC dtwalk.lo
dtwalk.c: In function 'dtwalk':
dtwalk.c:14:1: warning: function declaration isn't a prototype [-Wstrict-prototypes]
14 | int(* userf)();
| ^~~
CCLD libcdt.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
CCLD libcdt_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/cdt'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
/bin/sh ../../libtool --mode=install /usr/bin/install -c libcdt.la '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
libtool: install: /usr/bin/install -c .libs/libcdt.lai /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libcdt.la
libtool: install: /usr/bin/install -c .libs/libcdt.a /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libcdt.a
libtool: install: chmod 644 /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libcdt.a
libtool: install: ranlib /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libcdt.a
----------------------------------------------------------------------
Libraries have been installed in:
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib
If you ever happen to want to link against installed libraries
in a given directory, LIBDIR, you must either use libtool, and
specify the full pathname of the library, or use the `-LLIBDIR'
flag during linking and do at least one of the following:
- add LIBDIR to the `PATH' environment variable
during execution
- add LIBDIR to the `LD_RUN_PATH' environment variable
during linking
- use the `-LLIBDIR' linker flag
See any operating system documentation about shared libraries for
more information, such as the ld(1) and ld.so(8) manual pages.
----------------------------------------------------------------------
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/install -c -m 644 cdt.3 '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/install -c -m 644 cdt.3.pdf '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/pkgconfig'
/usr/bin/install -c -m 644 libcdt.pc '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/pkgconfig'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
/usr/bin/install -c -m 644 cdt.h '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/cdt'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/cdt'
Making install in graph
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/graph'
CC attribs.lo
attribs.c: In function 'agcopydict':
attribs.c:286:25: warning: zero-length ms_printf format string [-Wformat-zero-length]
286 | fprintf(stderr, "", a->name, a->value);
| ^~
attribs.c:286:25: warning: zero-length gnu_printf format string [-Wformat-zero-length]
CC agxbuf.lo
CC edge.lo
CC graph.lo
graph.c: In function 'agclose':
graph.c:374:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
374 | if (g->attr)
| ^~
graph.c:376:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
376 | if (g->didset)
| ^~
CC graphio.lo
sed "s/yy/ag/g" < y.tab.h > parser.h
CC lexer.lo
lexer.c: In function 'scan_token':
lexer.c:141:11: warning: comparison between pointer and zero character constant [-Wpointer-compare]
141 | if (p == '\0')
| ^~
lexer.c:141:9: note: did you mean to dereference the pointer?
141 | if (p == '\0')
| ^
lexer.c:147:12: warning: pointer targets in returning 'unsigned char *' from a function with return type 'char *' differ in signedness [-Wpointer-sign]
147 | return p;
| ^
lexer.c: In function 'html_pair':
lexer.c:322:9: warning: variable 'rc' set but not used [-Wunused-but-set-variable]
322 | int rc, depth = 1;
| ^~
In file included from lexer.c:20:
lexer.c: In function 'aglex':
agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
lexer.c:413:36: note: in expansion of macro 'agxbuse'
413 | aglval.str = agstrdup_html(agxbuse(&xb));
| ^~~~~~~
lexer.c:435:33: warning: pointer targets in passing argument 1 of 'scan_token' differ in signedness [-Wpointer-sign]
435 | LexPtr = scan_token(LexPtr, tbuf);
| ^~~~~~
| |
| char *
lexer.c:136:40: note: expected 'unsigned char *' but argument is of type 'char *'
136 | static char *scan_token(unsigned char *p, unsigned char *token)
| ~~~~~~~~~~~~~~~^
lexer.c:435:41: warning: pointer targets in passing argument 2 of 'scan_token' differ in signedness [-Wpointer-sign]
435 | LexPtr = scan_token(LexPtr, tbuf);
| ^~~~
| |
| char *
lexer.c:136:58: note: expected 'unsigned char *' but argument is of type 'char *'
136 | static char *scan_token(unsigned char *p, unsigned char *token)
| ~~~~~~~~~~~~~~~^~~~~
CC node.lo
sed "s/yy/ag/g" < y.tab.c > parser.c
CC parser.lo
CC refstr.lo
CC trie.lo
CCLD libgraph.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
CCLD libgraph_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/graph'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
/bin/sh ../../libtool --mode=install /usr/bin/install -c libgraph.la '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
libtool: install: /usr/bin/install -c .libs/libgraph.lai /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgraph.la
libtool: install: /usr/bin/install -c .libs/libgraph.a /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgraph.a
libtool: install: chmod 644 /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgraph.a
libtool: install: ranlib /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgraph.a
----------------------------------------------------------------------
Libraries have been installed in:
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib
If you ever happen to want to link against installed libraries
in a given directory, LIBDIR, you must either use libtool, and
specify the full pathname of the library, or use the `-LLIBDIR'
flag during linking and do at least one of the following:
- add LIBDIR to the `PATH' environment variable
during execution
- add LIBDIR to the `LD_RUN_PATH' environment variable
during linking
- use the `-LLIBDIR' linker flag
See any operating system documentation about shared libraries for
more information, such as the ld(1) and ld.so(8) manual pages.
----------------------------------------------------------------------
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/install -c -m 644 graph.3 '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/install -c -m 644 graph.3.pdf '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/pkgconfig'
/usr/bin/install -c -m 644 libgraph.pc '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/pkgconfig'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
/usr/bin/install -c -m 644 graph.h '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/graph'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/graph'
Making install in pathplan
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/pathplan'
CC cvt.lo
cvt.c:276:13: warning: 'append_bezier' defined but not used [-Wunused-function]
276 | static void append_bezier(Ppoint_t * bezier)
| ^~~~~~~~~~~~~
CC inpoly.lo
CC route.lo
route.c:107:29: warning: argument 4 of type 'Ppoint_t *' {aka 'struct Pxy_t *'} declared as a pointer [-Warray-parameter=]
107 | Ppoint_t * evs, Ppolyline_t * output)
| ~~~~~~~~~~~^~~
In file included from pathutil.h:20,
from route.c:21:
pathplan.h:37:39: note: previously declared as an array 'Pvector_t[2]' {aka 'struct Pxy_t[2]'}
37 | Pvector_t endpoint_slopes[2],
| ~~~~~~~~~~^~~~~~~~~~~~~~~~~~
CC shortest.lo
shortest.c:103:47: warning: argument 2 of type 'Ppoint_t *' {aka 'struct Pxy_t *'} declared as a pointer [-Warray-parameter=]
103 | int Pshortestpath(Ppoly_t * polyp, Ppoint_t * eps, Ppolyline_t * output)
| ~~~~~~~~~~~^~~
In file included from pathutil.h:20,
from shortest.c:22:
pathplan.h:31:59: note: previously declared as an array 'Ppoint_t[2]' {aka 'struct Pxy_t[2]'}
31 | extern int Pshortestpath(Ppoly_t * boundary, Ppoint_t endpoints[2],
| ~~~~~~~~~^~~~~~~~~~~~
CC shortestpth.lo
CC solvers.lo
CC triang.lo
CC util.lo
CC visibility.lo
CCLD libpathplan.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
CCLD libpathplan_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/pathplan'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
/bin/sh ../../libtool --mode=install /usr/bin/install -c libpathplan.la '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
libtool: install: /usr/bin/install -c .libs/libpathplan.lai /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libpathplan.la
libtool: install: /usr/bin/install -c .libs/libpathplan.a /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libpathplan.a
libtool: install: chmod 644 /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libpathplan.a
libtool: install: ranlib /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libpathplan.a
----------------------------------------------------------------------
Libraries have been installed in:
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib
If you ever happen to want to link against installed libraries
in a given directory, LIBDIR, you must either use libtool, and
specify the full pathname of the library, or use the `-LLIBDIR'
flag during linking and do at least one of the following:
- add LIBDIR to the `PATH' environment variable
during execution
- add LIBDIR to the `LD_RUN_PATH' environment variable
during linking
- use the `-LLIBDIR' linker flag
See any operating system documentation about shared libraries for
more information, such as the ld(1) and ld.so(8) manual pages.
----------------------------------------------------------------------
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/install -c -m 644 pathplan.3 '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/install -c -m 644 pathplan.3.pdf '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/pkgconfig'
/usr/bin/install -c -m 644 libpathplan.pc '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/pkgconfig'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
/usr/bin/install -c -m 644 pathgeom.h pathplan.h '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/pathplan'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/pathplan'
Making install in vpsc
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/vpsc'
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/vpsc'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/vpsc'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/vpsc'
Making install in rbtree
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/rbtree'
CC misc.lo
CC red_black_tree.lo
CC stack.lo
CCLD librbtree_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/rbtree'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/rbtree'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/rbtree'
Making install in ortho
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/ortho'
CC fPQ.lo
CC intset.lo
CC maze.lo
maze.c: In function 'mkMazeGraph':
maze.c:325:20: warning: variable 'ncnt' set but not used [-Wunused-but-set-variable]
325 | int nsides, i, ncnt, maxdeg;
| ^~~~
CC ortho.lo
ortho.c: In function 'addLoop':
ortho.c:461:16: warning: variable 'wt' set but not used [-Wunused-but-set-variable]
461 | double wt;
| ^~
ortho.c: In function 'addNodeEdges':
ortho.c:497:16: warning: variable 'wt' set but not used [-Wunused-but-set-variable]
497 | double wt;
| ^~
ortho.c: In function 'putSeg':
ortho.c:545:5: warning: 's' may be used uninitialized [-Wmaybe-uninitialized]
545 | fprintf (fp, "((%f,%f),(%f,%f)) %s %s", seg->p.p1,seg->comm_coord,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
546 | seg->p.p2, seg->comm_coord, bendToStr (seg->l1), bendToStr (seg->l2));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ortho.c:518:9: note: 's' was declared here
518 | char* s;
| ^
ortho.c:545:5: warning: 's' may be used uninitialized [-Wmaybe-uninitialized]
545 | fprintf (fp, "((%f,%f),(%f,%f)) %s %s", seg->p.p1,seg->comm_coord,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
546 | seg->p.p2, seg->comm_coord, bendToStr (seg->l1), bendToStr (seg->l2));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ortho.c:518:9: note: 's' was declared here
518 | char* s;
| ^
ortho.c:542:5: warning: 's' may be used uninitialized [-Wmaybe-uninitialized]
542 | fprintf (fp, "((%f,%f),(%f,%f)) %s %s", seg->comm_coord, seg->p.p1,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
543 | seg->comm_coord, seg->p.p2, bendToStr (seg->l1), bendToStr (seg->l2));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ortho.c:518:9: note: 's' was declared here
518 | char* s;
| ^
ortho.c:542:5: warning: 's' may be used uninitialized [-Wmaybe-uninitialized]
542 | fprintf (fp, "((%f,%f),(%f,%f)) %s %s", seg->comm_coord, seg->p.p1,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
543 | seg->comm_coord, seg->p.p2, bendToStr (seg->l1), bendToStr (seg->l2));
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
ortho.c:518:9: note: 's' was declared here
518 | char* s;
| ^
ortho.c: In function 'orthoEdges':
ortho.c:1303:25: warning: 'ps' may be used uninitialized [-Wmaybe-uninitialized]
1303 | if (isInPS (ps,hi,ti)) continue;
| ^~~~~~~~~~~~~~~~~
ortho.c:1250:15: note: 'ps' was declared here
1250 | PointSet* ps;
| ^~
In function 'convertSPtoRoute',
inlined from 'orthoEdges' at ortho.c:1341:25:
ortho.c:179:25: warning: 'prevbp.y' may be used uninitialized [-Wmaybe-uninitialized]
179 | else if (prevbp.y > bp1.y) l1 = B_UP;
| ^
ortho.c: In function 'orthoEdges':
ortho.c:152:22: note: 'prevbp.y' was declared here
152 | pointf bp1, bp2, prevbp; /* bend points */
| ^~~~~~
In function 'convertSPtoRoute',
inlined from 'orthoEdges' at ortho.c:1341:25:
ortho.c:192:25: warning: 'prevbp.x' may be used uninitialized [-Wmaybe-uninitialized]
192 | else if (prevbp.x > bp1.x) l1 = B_RIGHT;
| ^
ortho.c: In function 'orthoEdges':
ortho.c:152:22: note: 'prevbp.x' was declared here
152 | pointf bp1, bp2, prevbp; /* bend points */
| ^~~~~~
CC partition.lo
partition.c: In function 'traverse_polygon':
partition.c:328:7: warning: variable 'do_switch' set but not used [-Wunused-but-set-variable]
328 | int do_switch = FALSE;
| ^~~~~~~~~
partition.c:327:7: warning: variable 'retval' set but not used [-Wunused-but-set-variable]
327 | int retval;
| ^~~~~~
partition.c: In function 'partition':
partition.c:731:9: warning: variable 'nt' set but not used [-Wunused-but-set-variable]
731 | int nt;
| ^~
partition.c: In function 'make_new_monotone_poly':
partition.c:298:18: warning: 'tp' may be used uninitialized [-Wmaybe-uninitialized]
298 | vp0->vnext[ip] = v1;
| ~~~~~~~~~~~~~~~^~~~
partition.c:212:7: note: 'tp' was declared here
212 | int tp, tq;
| ^~
partition.c:274:5: warning: 'tq' may be used uninitialized [-Wmaybe-uninitialized]
274 | q = vp1->vpos[iq];
| ~~^~~~~~~~~~~~~~~
partition.c:212:11: note: 'tq' was declared here
212 | int tp, tq;
| ^~
partition.c: In function 'monotonate_trapezoids':
partition.c:665:10: warning: 'size' may be used uninitialized [-Wmaybe-uninitialized]
665 | return size;
| ^~~~
partition.c:620:12: note: 'size' was declared here
620 | int i, size;
| ^~~~
CC rawgraph.lo
CC sgraph.lo
CC trapezoid.lo
trapezoid.c:66:12: warning: function declaration isn't a prototype [-Wstrict-prototypes]
66 | static int newnode()
| ^~~~~~~
trapezoid.c: In function 'add_segment':
trapezoid.c:437:7: warning: variable 'tritop' set but not used [-Wunused-but-set-variable]
437 | int tritop = 0, tribot = 0, is_swapped;
| ^~~~~~
trapezoid.c: In function 'add_segment.isra':
trapezoid.c:996:3: warning: 'tfirstr' may be used uninitialized [-Wmaybe-uninitialized]
996 | merge_trapezoids(segnum, tfirstr, tlastr, S_RIGHT, tr, qs);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
trapezoid.c:434:7: note: 'tfirstr' was declared here
434 | int tfirstr, tlastr, tfirstl, tlastl;
| ^~~~~~~
trapezoid.c:996:3: warning: 'tlastr' may be used uninitialized [-Wmaybe-uninitialized]
996 | merge_trapezoids(segnum, tfirstr, tlastr, S_RIGHT, tr, qs);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
trapezoid.c:434:16: note: 'tlastr' was declared here
434 | int tfirstr, tlastr, tfirstl, tlastl;
| ^~~~~~
CCLD libortho_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/ortho'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/ortho'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/ortho'
Making install in sparse
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/sparse'
CC SparseMatrix.lo
SparseMatrix.c: In function 'SparseMatrix_import_binary':
SparseMatrix.c:629:48: warning: variable 'iread' set but not used [-Wunused-but-set-variable]
629 | int m, n, nz, nzmax, type, format, property, iread;
| ^~~~~
CC general.lo
CC BinaryHeap.lo
CC IntStack.lo
CCLD libsparse_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/sparse'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/sparse'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/sparse'
Making install in patchwork
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/patchwork'
CC patchwork.lo
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:231:12: warning: pointer 'cp' used after 'free' [-Wuse-after-free]
231 | cp = cp->rightsib;
| ~~~^~~~~~~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:233:5: note: call to 'free' here
233 | free (tp);
| ^~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:231:12: warning: pointer 'cp' used after 'free' [-Wuse-after-free]
231 | cp = cp->rightsib;
| ~~~^~~~~~~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:233:5: note: call to 'free' here
233 | free (tp);
| ^~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:231:12: warning: pointer 'cp' used after 'free' [-Wuse-after-free]
231 | cp = cp->rightsib;
| ~~~^~~~~~~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:233:5: note: call to 'free' here
233 | free (tp);
| ^~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:231:12: warning: pointer 'cp' used after 'free' [-Wuse-after-free]
231 | cp = cp->rightsib;
| ~~~^~~~~~~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:233:5: note: call to 'free' here
233 | free (tp);
| ^~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:231:12: warning: pointer 'cp' used after 'free' [-Wuse-after-free]
231 | cp = cp->rightsib;
| ~~~^~~~~~~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:233:5: note: call to 'free' here
233 | free (tp);
| ^~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:231:12: warning: pointer 'cp' used after 'free' [-Wuse-after-free]
231 | cp = cp->rightsib;
| ~~~^~~~~~~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:233:5: note: call to 'free' here
233 | free (tp);
| ^~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:231:12: warning: pointer 'cp' used after 'free' [-Wuse-after-free]
231 | cp = cp->rightsib;
| ~~~^~~~~~~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2,
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:233:5: note: call to 'free' here
233 | free (tp);
| ^~~~~~~~~
patchwork.c: In function 'freeTree':
patchwork.c:231:12: warning: pointer 'cp' used after 'free' [-Wuse-after-free]
231 | cp = cp->rightsib;
| ~~~^~~~~~~~~~~~~~
In function 'freeTree',
inlined from 'freeTree' at patchwork.c:230:2:
patchwork.c:233:5: note: call to 'free' here
233 | free (tp);
| ^~~~~~~~~
CC patchworkinit.lo
CC tree_map.lo
CCLD libpatchwork_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/patchwork'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/patchwork'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/patchwork'
Making install in common
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/common'
CC arrows.lo
arrows.c: In function 'arrowOrthoClip':
arrows.c:397:28: warning: 'hlen' may be used uninitialized [-Wmaybe-uninitialized]
397 | else r.y = p.y - hlen;
| ~~~~^~~~~~
arrows.c:317:21: note: 'hlen' was declared here
317 | double d, tlen, hlen, maxd;
| ^~~~
cat brewer_lib svgcolor_lib ../../lib/common/color_names | LC_ALL=C sort > color_lib
gawk -f ../../awk/colortbl.awk color_lib > colortbl.h
CC colxlate.lo
CC fontmetrics.lo
CC args.lo
CC memory.lo
CC globals.lo
sed "s/yy/html/g" < y.tab.h > htmlparse.h
CC htmllex.lo
In file included from render.h:47,
from htmllex.c:15:
htmllex.c: In function 'error_context':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
htmllex.c:57:35: note: in expansion of macro 'agxbuse'
57 | agerr(AGPREV, "... %s ...\n", agxbuse(state.xb));
| ^~~~~~~
sed "s/yy/html/g" < y.tab.c > htmlparse.c
CC htmlparse.lo
In file included from render.h:47,
from ../../lib/common/htmlparse.y:16:
../../lib/common/htmlparse.y: In function 'appendFItemList':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
../../lib/common/htmlparse.y:193:25: note: in expansion of macro 'agxbuse'
193 | fi->ti.str = strdup(agxbuse(ag));
| ^~~~~~~
../../lib/common/htmlparse.y: In function 'htmlparse':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
../../lib/common/htmlparse.y:500:24: note: in expansion of macro 'agxbuse'
500 | if (nonSpace(agxbuse(HTMLstate.str))) {
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
../../lib/common/htmlparse.y:511:24: note: in expansion of macro 'agxbuse'
511 | if (nonSpace(agxbuse(HTMLstate.str))) {
| ^~~~~~~
CC htmltable.lo
In file included from render.h:47,
from htmltable.c:35:
htmltable.c: In function 'initAnchor':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
htmltable.c:299:14: note: in expansion of macro 'agxbuse'
299 | id = agxbuse (&xb);
| ^~~~~~~
htmltable.c: In function 'nameOf':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
htmltable.c:1665:12: note: in expansion of macro 'agxbuse'
1665 | return agxbuse(xb);
| ^~~~~~~
htmltable.c: In function 'make_html_label':
htmltable.c:1828:12: warning: 'env.g' may be used uninitialized [-Wmaybe-uninitialized]
1828 | g = env.g->root;
| ~~~^~
htmltable.c:1809:15: note: 'env' declared here
1809 | htmlenv_t env;
| ^~~
CC input.lo
input.c: In function 'dotneato_basename':
input.c:136:5: warning: this 'while' clause does not guard... [-Wmisleading-indentation]
136 | while (*s) s++; s--;
| ^~~~~
input.c:136:21: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'while'
136 | while (*s) s++; s--;
| ^
In file included from render.h:47,
from input.c:15:
input.c: In function 'global_def':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
input.c:200:24: note: in expansion of macro 'agxbuse'
200 | sym = dclfun(NULL, agxbuse (xb), rhs);
| ^~~~~~~
CC pointset.lo
CC postproc.lo
postproc.c: In function 'gv_postprocess':
postproc.c:24:1: warning: ' translate } def
/arrowlengt...' directive writing 560 bytes into a region of size between 230 and 296 [-Wformat-overflow=]
24 | "/pathbox {\n\
| ^~~~~~~~~~~~~~
25 | /Y exch %.5g sub def\n\
| ~~~~~~~~~~~~~~~~~~~~~~~
26 | /X exch %.5g sub def\n\
| ~~~~~~~~~~~~~~~~~~~~~~~
27 | /y exch %.5g sub def\n\
| ~~~~~~~~~~~~~~~~~~~~~~~
28 | /x exch %.5g sub def\n\
| ~~~~~~~~~~~~~~~~~~~~~~~
29 | newpath x y moveto\n\
| ~~~~~~~~~~~~~~~~~~~~~
30 | X y lineto\n\
| ~~~~~~~~~~~~~
31 | X Y lineto\n\
| ~~~~~~~~~~~~~
32 | x Y lineto\n\
| ~~~~~~~~~~~~~
33 | closepath stroke\n \
| ~~~~~~~~~~~~~~~~~~~~
34 | } def\n\
| ~~~~~~~~
35 | /dbgstart { gsave %.5g %.5g translate } def\n\
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
36 | /arrowlength 10 def\n\
| ~~~~~~~~~~~~~~~~~~~~~~
37 | /arrowwidth arrowlength 2 div def\n\
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
38 | /arrowhead {\n\
| ~~~~~~~~~~~~~~~
39 | gsave\n\
| ~~~~~~~~
40 | rotate\n\
| ~~~~~~~~~
41 | currentpoint\n\
| ~~~~~~~~~~~~~~~
42 | newpath\n\
| ~~~~~~~~~~
43 | moveto\n\
| ~~~~~~~~~
44 | arrowlength arrowwidth 2 div rlineto\n\
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
45 | 0 arrowwidth neg rlineto\n\
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~
46 | closepath fill\n\
| ~~~~~~~~~~~~~~~~~
47 | grestore\n\
| ~~~~~~~~~~~
48 | } bind def\n\
| ~~~~~~~~~~~~~
49 | /makearrow {\n\
| ~~~~~~~~~~~~~~~
50 | currentpoint exch pop sub exch currentpoint pop sub atan\n\
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
51 | arrowhead\n\
| ~~~~~~~~~~~~
52 | } bind def\n\
| ~~~~~~~~~~~~~
53 | /point {\
| ~~~~~~~~~
54 | newpath\
| ~~~~~~~~
55 | 2 0 360 arc fill\
| ~~~~~~~~~~~~~~~~~
56 | } def\
| ~~~~~~
57 | /makevec {\n\
| ~~~~~~~~~~~~~
58 | /Y exch def\n\
| ~~~~~~~~~~~~~~
59 | /X exch def\n\
| ~~~~~~~~~~~~~~
60 | /y exch def\n\
| ~~~~~~~~~~~~~~
61 | /x exch def\n\
| ~~~~~~~~~~~~~~
62 | newpath x y moveto\n\
| ~~~~~~~~~~~~~~~~~~~~~
63 | X Y lineto stroke\n\
| ~~~~~~~~~~~~~~~~~~~~
64 | X Y moveto\n\
| ~~~~~~~~~~~~~
65 | x y makearrow\n\
| ~~~~~~~~~~~~~~~~
66 | } def\n"
| ~~~~~~~~
postproc.c:296:26: note: in expansion of macro 'M1'
296 | sprintf(buf, M1, Offset.y, Offset.x, Offset.y, Offset.x,
| ^~
postproc.c:296:13: note: 'sprintf' output between 777 and 843 bytes into a destination of size 512
296 | sprintf(buf, M1, Offset.y, Offset.x, Offset.y, Offset.x,
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
297 | -Offset.x, -Offset.y);
| ~~~~~~~~~~~~~~~~~~~~~
CC routespl.lo
CC splines.lo
CC psusershape.lo
psusershape.c: In function 'user_init':
psusershape.c:49:30: warning: variable 'rc' set but not used [-Wunused-but-set-variable]
49 | int saw_bb, must_inline, rc;
| ^~
In file included from render.h:47,
from psusershape.c:20:
psusershape.c: In function 'ps_string':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
psusershape.c:303:5: note: in expansion of macro 'agxbputc'
303 | agxbputc (&xb, RPAREN);
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
psusershape.c:305:9: note: in expansion of macro 'agxbuse'
305 | s = agxbuse(&xb);
| ^~~~~~~
psusershape.c:268:9: warning: variable 'rc' set but not used [-Wunused-but-set-variable]
268 | int rc;
| ^~
CC timing.lo
CC labels.lo
labels.c: In function 'xml_url_string':
labels.c:561:21: warning: variable 'prev' set but not used [-Wunused-but-set-variable]
561 | char *p, *sub, *prev = NULL;
| ^~~~
CC ns.lo
CC shapes.lo
CC utils.lo
utils.c: In function 'chkPort':
utils.c:690:5: warning: this 'else' clause does not guard... [-Wmisleading-indentation]
690 | else
| ^~~~
utils.c:692:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'else'
692 | pt.name = s;
| ^~
In file included from render.h:47,
from utils.c:14:
utils.c: In function 'clustNode':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
utils.c:950:5: note: in expansion of macro 'agxbputc'
950 | agxbputc(xb, ':');
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
utils.c:954:29: note: in expansion of macro 'agxbuse'
954 | cn = agnode(agroot(cg), agxbuse(xb));
| ^~~~~~~
utils.c: In function 'scanEntity':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
utils.c:1359:5: note: in expansion of macro 'agxbputc'
1359 | agxbputc(xb, '&');
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
utils.c:1369:5: note: in expansion of macro 'agxbputc'
1369 | agxbputc(xb, '#');
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
utils.c:1371:5: note: in expansion of macro 'agxbputc'
1371 | agxbputc(xb, ';');
| ^~~~~~~~
utils.c: In function 'htmlEntityUTF8':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
utils.c:1515:18: note: in expansion of macro 'agxbuse'
1515 | ns = strdup (agxbuse(&xb));
| ^~~~~~~
utils.c:1456:9: warning: variable 'rc' set but not used [-Wunused-but-set-variable]
1456 | int rc;
| ^~
utils.c: In function 'latin1ToUTF8':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
utils.c:1555:18: note: in expansion of macro 'agxbuse'
1555 | ns = strdup (agxbuse(&xb));
| ^~~~~~~
utils.c:1531:9: warning: variable 'rc' set but not used [-Wunused-but-set-variable]
1531 | int rc;
| ^~
utils.c: In function 'utf8ToLatin1':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
utils.c:1587:18: note: in expansion of macro 'agxbuse'
1587 | ns = strdup (agxbuse(&xb));
| ^~~~~~~
utils.c:1573:9: warning: variable 'rc' set but not used [-Wunused-but-set-variable]
1573 | int rc;
| ^~
utils.c: In function 'fix_fc':
utils.c:1891:9: warning: unused variable 'cur' [-Wunused-variable]
1891 | int cur=0;
| ^~~
utils.c:1890:10: warning: unused variable 'buf2' [-Wunused-variable]
1890 | char buf2[28192];
| ^~~~
utils.c:1889:10: warning: unused variable 'buf' [-Wunused-variable]
1889 | char buf[28192];
| ^~~
CC geom.lo
geom.c:24: warning: "inline" redefined
24 | #define inline
|
In file included from geom.c:22:
geomprocs.h:57: note: this is the location of the previous definition
57 | #define inline __inline
|
CC output.lo
In file included from render.h:47,
from output.c:14:
output.c: In function 'attach_attrs_and_arrows':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
output.c:350:29: note: in expansion of macro 'agxbuse'
350 | agset(n, "pos", agxbuse(&xb));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
output.c:373:31: note: in expansion of macro 'agxbuse'
373 | agset(n, "rects", agxbuse(&xb));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
output.c:391:25: note: in expansion of macro 'agxbputc'
391 | agxbputc(&xb, ' ');
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
output.c:403:46: note: in expansion of macro 'agxbuse'
403 | agxset(n, N_vertices->index, agxbuse(&xb));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
output.c:417:25: note: in expansion of macro 'agxbputc'
417 | agxbputc(&xb, ';');
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
output.c:434:29: note: in expansion of macro 'agxbputc'
434 | agxbputc(&xb, ' ');
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
output.c:440:33: note: in expansion of macro 'agxbuse'
440 | agset(e, "pos", agxbuse(&xb));
| ^~~~~~~
CC emit.lo
In file included from render.h:47,
from emit.c:25:
emit.c: In function 'getObjId':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
emit.c:212:9: note: in expansion of macro 'agxbputc'
212 | agxbputc (xb, '_');
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
emit.c:218:12: note: in expansion of macro 'agxbuse'
218 | return agxbuse(xb);
| ^~~~~~~
emit.c: In function 'emit_xdot':
emit.c:941:11: warning: variable 'fontname' set but not used [-Wunused-but-set-variable]
941 | char* fontname;
| ^~~~~~~~
emit.c:940:12: warning: variable 'fontsize' set but not used [-Wunused-but-set-variable]
940 | double fontsize;
| ^~~~~~~~
emit.c: In function 'selectedlayer':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
emit.c:1152:22: note: in expansion of macro 'agxbuse'
1152 | w1 = w0 = strtok(agxbuse(&xb), gvc->layerDelims);
| ^~~~~~~
emit.c: In function 'nodeIntersect':
emit.c:2247:11: warning: variable 'target' set but not used [-Wunused-but-set-variable]
2247 | char* target;
| ^~~~~~
emit.c:2246:11: warning: variable 'tooltip' set but not used [-Wunused-but-set-variable]
2246 | char* tooltip;
| ^~~~~~~
emit.c: In function 'xdotBB':
emit.c:2474:12: warning: variable 'sz' set but not used [-Wunused-but-set-variable]
2474 | pointf sz;
| ^~
emit.c: In function 'style_token':
emit.c:3262:16: warning: variable 'rc' set but not used [-Wunused-but-set-variable]
3262 | int token, rc;
| ^~
emit.c: In function 'parse_style':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
emit.c:3356:17: note: in expansion of macro 'agxbputc'
3356 | agxbputc(&ps_xb, '\0'); /* terminate previous */
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
emit.c:3359:29: note: in expansion of macro 'agxbuse'
3359 | agxbput(&ps_xb, agxbuse(&xb));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
emit.c:3360:13: note: in expansion of macro 'agxbputc'
3360 | agxbputc(&ps_xb, '\0');
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
emit.c:3372:11: note: in expansion of macro 'agxbuse'
3372 | (void)agxbuse(&ps_xb); /* adds final '\0' to buffer */
| ^~~~~~~
emit.c: In function 'getObjId':
emit.c:215:5: warning: 'idnum' may be used uninitialized [-Wmaybe-uninitialized]
215 | sprintf (buf, "%ld", idnum);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~
emit.c:182:10: note: 'idnum' was declared here
182 | long idnum;
| ^~~~~
emit.c:214:5: warning: 'pfx' may be used uninitialized [-Wmaybe-uninitialized]
214 | agxbput (xb, pfx);
| ^~~~~~~~~~~~~~~~~
emit.c:183:11: note: 'pfx' was declared here
183 | char* pfx;
| ^~~
emit.c: In function 'xdotBB':
emit.c:2515:18: warning: 'fontsize' may be used uninitialized [-Wmaybe-uninitialized]
2515 | sz = textsize (g, op->para, fontname, fontsize);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
emit.c:2471:12: note: 'fontsize' was declared here
2471 | double fontsize;
| ^~~~~~~~
emit.c:2515:18: warning: 'fontname' may be used uninitialized [-Wmaybe-uninitialized]
2515 | sz = textsize (g, op->para, fontname, fontsize);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
emit.c:2472:11: note: 'fontname' was declared here
2472 | char* fontname;
| ^~~~~~~~
In function 'multicolor',
inlined from 'emit_edge_graphics' at emit.c:1814:10,
inlined from 'emit_edge' at emit.c:2389:2,
inlined from 'emit_edge' at emit.c:2350:13:
emit.c:1776:13: warning: 'endcolor' may be used uninitialized [-Wmaybe-uninitialized]
1776 | gvrender_set_fillcolor(job, endcolor);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
emit.c: In function 'emit_edge':
emit.c:1723:11: note: 'endcolor' was declared here
1723 | char* endcolor;
| ^~~~~~~~
In function 'emit_edge_graphics',
inlined from 'emit_edge' at emit.c:2389:2,
inlined from 'emit_edge' at emit.c:2350:13:
emit.c:1921:17: warning: 'bz.list' may be used uninitialized [-Wmaybe-uninitialized]
1921 | arrow_gen(job, EMIT_TDRAW, bz.sp, bz.list[0],
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1922 | arrowsize, penwidth, bz.sflag);
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
emit.c: In function 'emit_edge':
emit.c:1792:12: note: 'bz.list' was declared here
1792 | bezier bz;
| ^~
In function 'emit_edge_graphics',
inlined from 'emit_edge' at emit.c:2389:2,
inlined from 'emit_edge' at emit.c:2350:13:
emit.c:1932:61: warning: 'bz.size' may be used uninitialized [-Wmaybe-uninitialized]
1932 | arrow_gen(job, EMIT_HDRAW, bz.ep, bz.list[bz.size - 1],
| ~~^~~~~
emit.c: In function 'emit_edge':
emit.c:1792:12: note: 'bz.size' was declared here
1792 | bezier bz;
| ^~
In function 'emit_edge_graphics',
inlined from 'emit_edge' at emit.c:2389:2,
inlined from 'emit_edge' at emit.c:2350:13:
emit.c:1913:16: warning: 'bz.sflag' may be used uninitialized [-Wmaybe-uninitialized]
1913 | if (bz.sflag) {
| ^
emit.c: In function 'emit_edge':
emit.c:1792:12: note: 'bz.sflag' was declared here
1792 | bezier bz;
| ^~
In function 'emit_edge_graphics',
inlined from 'emit_edge' at emit.c:2389:2,
inlined from 'emit_edge' at emit.c:2350:13:
emit.c:1924:16: warning: 'bz.eflag' may be used uninitialized [-Wmaybe-uninitialized]
1924 | if (bz.eflag) {
| ^
emit.c: In function 'emit_edge':
emit.c:1792:12: note: 'bz.eflag' was declared here
1792 | bezier bz;
| ^~
CCLD libcommon_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/common'
make[4]: Nothing to be done for 'install-exec-am'.
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
/usr/bin/install -c -m 644 arith.h geom.h color.h types.h textpara.h usershape.h '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/common'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/common'
Making install in pack
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/pack'
CC ccomps.lo
CC pack.lo
pack.c: In function 'putGraphs':
pack.c:953:12: warning: 'pts' may be used uninitialized [-Wmaybe-uninitialized]
953 | return pts;
| ^~~
pack.c:920:12: note: 'pts' was declared here
920 | point* pts;
| ^~~
CCLD libpack_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/pack'
make[4]: Nothing to be done for 'install-exec-am'.
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/install -c -m 644 pack.3 '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/install -c -m 644 pack.3.pdf '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
/usr/bin/install -c -m 644 pack.h '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/pack'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/pack'
Making install in xdot
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/xdot'
CC xdot.lo
xdot.c: In function 'sprintXDot':
xdot.c:537:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
537 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
xdot.c:538:21: note: in expansion of macro 'agxbputc'
538 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
xdot.c:606:16: note: in expansion of macro 'agxbuse'
606 | s = strdup(agxbuse(&xb));
| ^~~~~~~
CCLD libxdot.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
CCLD libxdot_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/xdot'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
/bin/sh ../../libtool --mode=install /usr/bin/install -c libxdot.la '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
libtool: install: /usr/bin/install -c .libs/libxdot.lai /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libxdot.la
libtool: install: /usr/bin/install -c .libs/libxdot.a /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libxdot.a
libtool: install: chmod 644 /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libxdot.a
libtool: install: ranlib /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libxdot.a
----------------------------------------------------------------------
Libraries have been installed in:
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib
If you ever happen to want to link against installed libraries
in a given directory, LIBDIR, you must either use libtool, and
specify the full pathname of the library, or use the `-LLIBDIR'
flag during linking and do at least one of the following:
- add LIBDIR to the `PATH' environment variable
during execution
- add LIBDIR to the `LD_RUN_PATH' environment variable
during linking
- use the `-LLIBDIR' linker flag
See any operating system documentation about shared libraries for
more information, such as the ld(1) and ld.so(8) manual pages.
----------------------------------------------------------------------
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/install -c -m 644 xdot.3 '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/install -c -m 644 xdot.3.pdf '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/pkgconfig'
/usr/bin/install -c -m 644 libxdot.pc '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/pkgconfig'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
/usr/bin/install -c -m 644 xdot.h '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/xdot'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/xdot'
Making install in gvc
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/gvc'
CC gvrender.lo
CC gvlayout.lo
CC gvdevice.lo
CC gvloadimage.lo
CC gvcontext.lo
CC gvjobs.lo
CC gvevent.lo
CC gvplugin.lo
In file included from gvplugin.c:23:
gvplugin.c: In function 'gvplugin_list':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gvplugin.c:392:17: note: in expansion of macro 'agxbputc'
392 | agxbputc(&xb,' '); agxbput(&xb, (*pnext)->typestr);
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gvplugin.c:393:17: note: in expansion of macro 'agxbputc'
393 | agxbputc(&xb,':'); agxbput(&xb, (*pnext)->package->name);
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gvplugin.c:410:17: note: in expansion of macro 'agxbputc'
410 | agxbputc(&xb,' '); agxbput(&xb, q);
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvplugin.c:423:14: note: in expansion of macro 'agxbuse'
423 | bp = agxbuse(&xb);
| ^~~~~~~
CC gvconfig.lo
CC gvtextlayout.lo
CC gvusershape.lo
gvusershape.c: In function 'gvusershape_open':
gvusershape.c:415:17: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
415 | if (!(us->data = (void*)find_user_shape(us->name)))
| ^~
gvusershape.c:417:21: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
417 | free(us);
| ^~~~
CC gvc.lo
CCLD libgvc.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
CCLD libgvc_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/gvc'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
/bin/sh ../../libtool --mode=install /usr/bin/install -c libgvc.la '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
libtool: install: /usr/bin/install -c .libs/libgvc.lai /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvc.la
libtool: install: /usr/bin/install -c .libs/libgvc.a /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvc.a
libtool: install: chmod 644 /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvc.a
libtool: install: ranlib /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvc.a
----------------------------------------------------------------------
Libraries have been installed in:
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib
If you ever happen to want to link against installed libraries
in a given directory, LIBDIR, you must either use libtool, and
specify the full pathname of the library, or use the `-LLIBDIR'
flag during linking and do at least one of the following:
- add LIBDIR to the `PATH' environment variable
during execution
- add LIBDIR to the `LD_RUN_PATH' environment variable
during linking
- use the `-LLIBDIR' linker flag
See any operating system documentation about shared libraries for
more information, such as the ld(1) and ld.so(8) manual pages.
----------------------------------------------------------------------
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/install -c -m 644 gvc.3 '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man3'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/install -c -m 644 gvc.3.pdf '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc/pdf'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/pkgconfig'
/usr/bin/install -c -m 644 libgvc.pc '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/pkgconfig'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
/usr/bin/install -c -m 644 gvc.h gvcext.h gvplugin.h gvcjob.h gvcommon.h gvplugin_render.h gvplugin_layout.h gvconfig.h gvplugin_textlayout.h gvplugin_device.h gvplugin_loadimage.h '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/gvc'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/gvc'
Making install in circogen
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/circogen'
CC circularinit.lo
CC nodelist.lo
CC block.lo
CC edgelist.lo
CC circular.lo
CC deglist.lo
CC blocktree.lo
CC blockpath.lo
CC circpos.lo
In function 'positionChildren',
inlined from 'position' at circpos.c:421:2,
inlined from 'doBlock' at circpos.c:468:6:
circpos.c:338:20: warning: 'midAngle' may be used uninitialized [-Wmaybe-uninitialized]
338 | PSI(pi->n) = midAngle;
circpos.c: In function 'doBlock':
circpos.c:264:39: note: 'midAngle' was declared here
264 | double mindistAngle, rotateAngle, midAngle;
| ^~~~~~~~
CC nodeset.lo
CCLD libcircogen_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/circogen'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/circogen'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/circogen'
Making install in dotgen
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/dotgen'
CC acyclic.lo
CC class1.lo
CC class2.lo
CC cluster.lo
CC compound.lo
CC conc.lo
CC decomp.lo
CC fastgr.lo
CC flat.lo
CC dotinit.lo
CC mincross.lo
In function 'balanceNodes',
inlined from 'balance' at mincross.c:506:3,
inlined from 'mincross.constprop' at mincross.c:638:6:
mincross.c:414:12: warning: 'sepIndex' may be used uninitialized [-Wmaybe-uninitialized]
414 | for (i = sepIndex - 1; i >= 0; i--) {
| ~~^~~~~~~~~~~~~~
mincross.c: In function 'mincross.constprop':
mincross.c:374:9: note: 'sepIndex' was declared here
374 | int sepIndex;
| ^~~~~~~~
CC position.lo
CC rank.lo
CC sameport.lo
CC dotsplines.lo
dotsplines.c: In function 'makeLineEdge':
dotsplines.c:1604:30: warning: right-hand operand of comma expression has no effect [-Wunused-value]
1604 | lp = ED_label(e)->pos, lp;
| ^
dotsplines.c: In function 'completeregularpath':
dotsplines.c:1866:9: warning: variable 'pn' set but not used [-Wunused-but-set-variable]
1866 | int pn;
| ^~
dotsplines.c:1865:13: warning: variable 'pp' set but not used [-Wunused-but-set-variable]
1865 | pointf *pp;
| ^~
dotsplines.c: In function '_dot_splines':
dotsplines.c:882:12: warning: 'lminx' may be used uninitialized [-Wmaybe-uninitialized]
882 | double lminx, lmaxx;
| ^~~~~
dotsplines.c:882:19: warning: 'lmaxx' may be used uninitialized [-Wmaybe-uninitialized]
882 | double lminx, lmaxx;
| ^~~~~
dotsplines.c:488:9: warning: 'edges' may be used uninitialized [-Wmaybe-uninitialized]
488 | free(edges);
| ^~~~~~~~~~~
dotsplines.c:268:50: note: 'edges' was declared here
268 | edge_t *e, *e0, *e1, *ea, *eb, *le0, *le1, **edges;
| ^~~~~
dotsplines.c:489:15: warning: 'P' may be used uninitialized [-Wmaybe-uninitialized]
489 | free(P->boxes);
| ~^~~~~~~
dotsplines.c:269:11: note: 'P' was declared here
269 | path *P;
| ^
CC aspect.lo
aspect.c: In function 'computeCombiAR':
aspect.c:1614:12: warning: variable 'maxLayerIndex' set but not used [-Wunused-but-set-variable]
1614 | int i, maxLayerIndex;
| ^~~~~~~~~~~~~
In function 'reduceMaxWidth2',
inlined from 'applyPacking2' at aspect.c:1088:5,
inlined from 'rank3' at aspect.c:1824:2:
aspect.c:737:25: warning: 'maxLayerIndex' may be used uninitialized [-Wmaybe-uninitialized]
737 | layerWidthInfo[maxLayerIndex].nNodeGroupsInLayer,
| ^
aspect.c: In function 'rank3':
aspect.c:702:9: note: 'maxLayerIndex' was declared here
702 | int maxLayerIndex;
| ^~~~~~~~~~~~~
In function 'reduceMaxWidth2',
inlined from 'applyPacking2' at aspect.c:1088:5,
inlined from 'rank3' at aspect.c:1824:2:
aspect.c:749:8: warning: 'nextMaxWidth' may be used uninitialized [-Wmaybe-uninitialized]
749 | if (nextMaxWidth <= layerWidthInfo[maxLayerIndex].width / 4
| ^
aspect.c: In function 'rank3':
aspect.c:703:12: note: 'nextMaxWidth' was declared here
703 | double nextMaxWidth;
| ^~~~~~~~~~~~
CCLD libdotgen_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/dotgen'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/dotgen'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/dotgen'
Making install in fdpgen
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/fdpgen'
CC comp.lo
CC dbg.lo
CC grid.lo
CC fdpinit.lo
CC layout.lo
CC tlayout.lo
CC xlayout.lo
CC clusteredges.lo
CCLD libfdpgen_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/fdpgen'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/fdpgen'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/fdpgen'
Making install in neatogen
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/neatogen'
CC adjust.lo
adjust.c: In function 'getSizes':
adjust.c:674:48: warning: 'nedge_nodes' may be used uninitialized [-Wmaybe-uninitialized]
674 | if (elabels && IS_LNODE(n)) nedge_nodes++;
| ~~~~~~~~~~~^~
adjust.c:670:12: note: 'nedge_nodes' was declared here
670 | int i, nedge_nodes;
| ^~~~~~~~~~~
adjust.c: In function 'removeOverlapWith':
adjust.c:1045:9: warning: 'ret' may be used uninitialized [-Wmaybe-uninitialized]
1045 | int ret;
| ^~~
CC circuit.lo
CC edges.lo
CC geometry.lo
CC heap.lo
CC hedges.lo
CC info.lo
CC neatoinit.lo
CC legal.lo
CC lu.lo
CC matinv.lo
CC memory.lo
CC poly.lo
CC printvis.lo
CC site.lo
CC solve.lo
CC neatosplines.lo
neatosplines.c: In function 'makeObstacle':
neatosplines.c:363:13: warning: variable 'desc' set but not used [-Wunused-but-set-variable]
363 | epsf_t *desc;
| ^~~~
neatosplines.c: In function '_spline_edges':
neatosplines.c:603:15: warning: unused variable 'rtr' [-Wunused-variable]
603 | router_t* rtr = 0;
| ^~~
CC stuff.lo
stuff.c: In function 'jitter_d':
stuff.c:332:30: warning: implicit declaration of function 'drand48'; did you mean 'drand'? [-Wimplicit-function-declaration]
332 | ND_pos(np)[k] = nG * drand48();
| ^~~~~~~
| drand
CC voronoi.lo
voronoi.c: In function 'voronoi':
voronoi.c:46:49: warning: 'newintstar.y' may be used uninitialized [-Wmaybe-uninitialized]
45 | if (newsite != (struct Site *) NULL && (PQempty()
| ~~~~~~~~~
46 | || newsite->coord.y <
| ^~~~~~~~~~~~~~~~~~~~~
47 | newintstar.y
| ~~~~~~~~~~~~
voronoi.c:26:11: note: 'newintstar.y' was declared here
26 | Point newintstar;
| ^~~~~~~~~~
CC stress.lo
stress.c: In function 'mdsModel':
stress.c:1383:19: warning: 'delta' may be used uninitialized [-Wmaybe-uninitialized]
1383 | delta += abs(Dij[i*nG + j - shift] - graph[i].ewgts[e]);
| ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
stress.c:1370:12: note: 'delta' was declared here
1370 | double delta;
| ^~~~~
CC kkutils.lo
CC matrix_ops.lo
CC embed_graph.lo
CC dijkstra.lo
CC conjgrad.lo
CC pca.lo
CC closest.lo
CC bfs.lo
CC constraint.lo
CC quad_prog_solve.lo
CC smart_ini_x.lo
CC constrained_majorization.lo
CC opt_arrangement.lo
CC overlap.lo
CC call_tri.lo
CC compute_hierarchy.lo
CC delaunay.lo
CC multispline.lo
CCLD libneatogen_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/neatogen'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/neatogen'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/neatogen'
Making install in twopigen
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/twopigen'
CC twopiinit.lo
CC circle.lo
In function 'getRankseps',
inlined from 'setAbsolutePos' at circle.c:299:15,
inlined from 'circleLayout' at circle.c:368:5:
circle.c:285:12: warning: 'delx' may be used uninitialized [-Wmaybe-uninitialized]
285 | xf += delx;
| ~~~^~~~~~~
circle.c: In function 'circleLayout':
circle.c:268:20: note: 'delx' was declared here
268 | double xf = 0, delx, d;
| ^~~~
CCLD libtwopigen_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/twopigen'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/twopigen'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/twopigen'
Making install in sfdpgen
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/sfdpgen'
CC sfdpinit.lo
CC spring_electrical.lo
spring_electrical.c: In function 'rotate':
spring_electrical.c:1850:8: warning: variable 'y' set but not used [-Wunused-but-set-variable]
1850 | real y[4], axis[2], center[2], x0, x1;
| ^
CC LinkedList.lo
CC sparse_solve.lo
CC post_process.lo
post_process.c: In function 'StressMajorizationSmoother2_new':
post_process.c:110:36: warning: variable 'dd' set but not used [-Wunused-but-set-variable]
110 | real *avg_dist, diag_d, diag_w, *dd, dist, s = 0, stop = 0, sbot = 0;
| ^~
post_process.c: In function 'StressMajorizationSmoother_smooth':
post_process.c:578:102: warning: variable 'res' set but not used [-Wunused-but-set-variable]
578 | real *w, *dd, *d, *y = NULL, *x0 = NULL, *x00 = NULL, diag, diff = 1, *lambda = sm->lambda, maxit, res, alpha = 0., M = 0.;
| ^~~
post_process.c:578:9: warning: variable 'w' set but not used [-Wunused-but-set-variable]
578 | real *w, *dd, *d, *y = NULL, *x0 = NULL, *x00 = NULL, diag, diff = 1, *lambda = sm->lambda, maxit, res, alpha = 0., M = 0.;
| ^
post_process.c:577:32: warning: variable 'jw' set but not used [-Wunused-but-set-variable]
577 | int i, j, m, *id, *jd, *iw, *jw, idiag, flag = 0, iter = 0;
| ^~
post_process.c:577:27: warning: variable 'iw' set but not used [-Wunused-but-set-variable]
577 | int i, j, m, *id, *jd, *iw, *jw, idiag, flag = 0, iter = 0;
| ^~
post_process.c: In function 'TriangleSmoother_new':
post_process.c:698:68: warning: variable 'jd' set but not used [-Wunused-but-set-variable]
698 | int i, j, k, m = A->m, *ia = A->ia, *ja = A->ja, *iw, *jw, *id, *jd, jdiag, nz;
| ^~
post_process.c:698:63: warning: variable 'id' set but not used [-Wunused-but-set-variable]
698 | int i, j, k, m = A->m, *ia = A->ia, *ja = A->ja, *iw, *jw, *id, *jd, jdiag, nz;
| ^~
CC stress_model.lo
CC uniform_stress.lo
uniform_stress.c: In function 'uniform_stress':
uniform_stress.c:112:8: warning: variable 'res' set but not used [-Wunused-but-set-variable]
112 | real res;
| ^~~
CC QuadTree.lo
CC Multilevel.lo
Multilevel.c: In function 'maximal_independent_vertex_set':
Multilevel.c:87:30: warning: variable 'n' set but not used [-Wunused-but-set-variable]
87 | int i, ii, j, *ia, *ja, m, n, *p = NULL;
| ^
Multilevel.c: In function 'maximal_independent_vertex_set_RS':
Multilevel.c:138:57: warning: variable 'removed' set but not used [-Wunused-but-set-variable]
138 | int i, jj, ii, *p = NULL, j, k, *ia, *ja, m, n, gain, removed, nf = 0;
| ^~~~~~~
Multilevel.c:138:48: warning: variable 'n' set but not used [-Wunused-but-set-variable]
138 | int i, jj, ii, *p = NULL, j, k, *ia, *ja, m, n, gain, removed, nf = 0;
| ^
Multilevel.c: In function 'maximal_independent_edge_set_heavest_edge_pernode_leaves_first':
Multilevel.c:327:30: warning: variable 'n' set but not used [-Wunused-but-set-variable]
327 | int i, ii, j, *ia, *ja, m, n, *p = NULL, q;
| ^
Multilevel.c: In function 'maximal_independent_edge_set_heavest_edge_pernode_supernodes_first':
Multilevel.c:502:30: warning: variable 'n' set but not used [-Wunused-but-set-variable]
502 | int i, ii, j, *ia, *ja, m, n, *p = NULL;
| ^
Multilevel.c: In function 'maximal_independent_edge_set_heavest_cluster_pernode_leaves_first':
Multilevel.c:646:30: warning: variable 'n' set but not used [-Wunused-but-set-variable]
646 | int i, ii, j, *ia, *ja, m, n, *p = NULL, q, iv;
| ^
CC PriorityQueue.lo
CCLD libsfdpgen_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/sfdpgen'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/sfdpgen'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/sfdpgen'
Making install in osage
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/osage'
CC osageinit.lo
CCLD libosage_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/osage'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/osage'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib/osage'
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib'
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib'
make[2]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/lib'
Making install in plugin
make[2]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin'
Making install in core
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/core'
CC gvplugin_core.lo
CC gvrender_core_dot.lo
In file included from gvrender_core_dot.c:32:
gvrender_core_dot.c: In function 'xdot_str':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gvrender_core_dot.c:100:5: note: in expansion of macro 'agxbputc'
100 | agxbputc(xbufs[emit_state], ' ');
| ^~~~~~~~
gvrender_core_dot.c: In function 'xdot_points':
gvrender_core_dot.c:107:12: warning: variable 'rc' set but not used [-Wunused-but-set-variable]
107 | int i, rc;
| ^~
gvrender_core_dot.c: In function 'xdot_style':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gvrender_core_dot.c:162:13: note: in expansion of macro 'agxbputc'
162 | agxbputc(&xbuf, '(');
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gvrender_core_dot.c:166:21: note: in expansion of macro 'agxbputc'
166 | agxbputc(&xbuf, ',');
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gvrender_core_dot.c:172:13: note: in expansion of macro 'agxbputc'
172 | agxbputc(&xbuf, ')');
| ^~~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:174:30: note: in expansion of macro 'agxbuse'
174 | xdot_str (job, "S ", agxbuse(&xbuf));
| ^~~~~~~
gvrender_core_dot.c: In function 'xdot_end_node':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:186:38: note: in expansion of macro 'agxbuse'
186 | agxset(n, xd->n_draw->index, agxbuse(xbufs[EMIT_NDRAW]));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:192:40: note: in expansion of macro 'agxbuse'
192 | agxset(n, xd->n_l_draw->index, agxbuse(xbufs[EMIT_NLABEL]));
| ^~~~~~~
gvrender_core_dot.c: In function 'xdot_end_edge':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:206:38: note: in expansion of macro 'agxbuse'
206 | agxset(e, xd->e_draw->index, agxbuse(xbufs[EMIT_EDRAW]));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:212:38: note: in expansion of macro 'agxbuse'
212 | agxset(e, xd->t_draw->index, agxbuse(xbufs[EMIT_TDRAW]));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:218:38: note: in expansion of macro 'agxbuse'
218 | agxset(e, xd->h_draw->index, agxbuse(xbufs[EMIT_HDRAW]));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:224:39: note: in expansion of macro 'agxbuse'
224 | agxset(e, xd->e_l_draw->index,agxbuse(xbufs[EMIT_ELABEL]));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:230:39: note: in expansion of macro 'agxbuse'
230 | agxset(e, xd->tl_draw->index, agxbuse(xbufs[EMIT_TLABEL]));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:236:39: note: in expansion of macro 'agxbuse'
236 | agxset(e, xd->hl_draw->index, agxbuse(xbufs[EMIT_HLABEL]));
| ^~~~~~~
gvrender_core_dot.c: In function 'xdot_end_cluster':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:289:42: note: in expansion of macro 'agxbuse'
289 | agxset(cluster_g, xd->g_draw->index, agxbuse(xbufs[EMIT_CDRAW]));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:295:48: note: in expansion of macro 'agxbuse'
295 | agxset(cluster_g, xd->g_l_draw->index, agxbuse(xbufs[EMIT_CLABEL]));
| ^~~~~~~
gvrender_core_dot.c: In function 'xdot_end_graph':
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:436:38: note: in expansion of macro 'agxbuse'
436 | agxset(g, xd->g_draw->index, agxbuse(xbufs[EMIT_GDRAW]));
| ^~~~~~~
../../lib/graph/agxbuf.h:68:11: warning: right-hand operand of comma expression has no effect [-Wunused-value]
68 | (int)(*(X)->ptr++ = ((unsigned char)C)))
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
../../lib/graph/agxbuf.h:74:21: note: in expansion of macro 'agxbputc'
74 | #define agxbuse(X) (agxbputc(X,'\0'),(char*)((X)->ptr = (X)->buf))
| ^~~~~~~~
gvrender_core_dot.c:444:40: note: in expansion of macro 'agxbuse'
444 | agxset(g, xd->g_l_draw->index, agxbuse(xbufs[EMIT_GLABEL]));
| ^~~~~~~
CC gvrender_core_fig.lo
CC gvrender_core_map.lo
CC gvrender_core_ps.lo
CC gvrender_core_svg.lo
CC gvrender_core_tk.lo
gvrender_core_tk.c: In function 'tkgen_print_tags':
gvrender_core_tk.c:58:18: warning: variable 'ObjId' set but not used [-Wunused-but-set-variable]
58 | unsigned int ObjId;
| ^~~~~
gvrender_core_tk.c:57:21: warning: variable 'ObjPart' set but not used [-Wunused-but-set-variable]
57 | char *ObjType, *ObjPart;
| ^~~~~~~
CC gvrender_core_vml.lo
gvrender_core_vml.c: In function 'vml_ellipse':
gvrender_core_vml.c:452:38: warning: variable 'bottom' set but not used [-Wunused-but-set-variable]
452 | double dx, dy, left, right, top, bottom;
| ^~~~~~
gvrender_core_vml.c:452:26: warning: variable 'right' set but not used [-Wunused-but-set-variable]
452 | double dx, dy, left, right, top, bottom;
| ^~~~~
CC gvloadimage_core.lo
gvloadimage_core.c:19:22: warning: extra tokens at end of #include directive
19 | #include <unistd.h> # for read() declaration
| ^
CCLD libgvplugin_core.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
CCLD libgvplugin_core_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/core'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
/bin/sh ../../libtool --mode=install /usr/bin/install -c libgvplugin_core.la '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
libtool: install: /usr/bin/install -c .libs/libgvplugin_core.lai /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_core.la
libtool: install: /usr/bin/install -c .libs/libgvplugin_core.a /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_core.a
libtool: install: chmod 644 /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_core.a
libtool: install: ranlib /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_core.a
----------------------------------------------------------------------
Libraries have been installed in:
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib
If you ever happen to want to link against installed libraries
in a given directory, LIBDIR, you must either use libtool, and
specify the full pathname of the library, or use the `-LLIBDIR'
flag during linking and do at least one of the following:
- add LIBDIR to the `PATH' environment variable
during execution
- add LIBDIR to the `LD_RUN_PATH' environment variable
during linking
- use the `-LLIBDIR' linker flag
See any operating system documentation about shared libraries for
more information, such as the ld(1) and ld.so(8) manual pages.
----------------------------------------------------------------------
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/core'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/core'
Making install in dot_layout
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/dot_layout'
CC gvplugin_dot_layout.lo
CC gvlayout_dot_layout.lo
CCLD libgvplugin_dot_layout.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
CCLD libgvplugin_dot_layout_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/dot_layout'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
/bin/sh ../../libtool --mode=install /usr/bin/install -c libgvplugin_dot_layout.la '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
libtool: install: /usr/bin/install -c .libs/libgvplugin_dot_layout.lai /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_dot_layout.la
libtool: install: /usr/bin/install -c .libs/libgvplugin_dot_layout.a /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_dot_layout.a
libtool: install: chmod 644 /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_dot_layout.a
libtool: install: ranlib /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_dot_layout.a
----------------------------------------------------------------------
Libraries have been installed in:
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib
If you ever happen to want to link against installed libraries
in a given directory, LIBDIR, you must either use libtool, and
specify the full pathname of the library, or use the `-LLIBDIR'
flag during linking and do at least one of the following:
- add LIBDIR to the `PATH' environment variable
during execution
- add LIBDIR to the `LD_RUN_PATH' environment variable
during linking
- use the `-LLIBDIR' linker flag
See any operating system documentation about shared libraries for
more information, such as the ld(1) and ld.so(8) manual pages.
----------------------------------------------------------------------
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/dot_layout'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/dot_layout'
Making install in neato_layout
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/neato_layout'
CC gvplugin_neato_layout.lo
CC gvlayout_neato_layout.lo
CCLD libgvplugin_neato_layout.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
CCLD libgvplugin_neato_layout_C.la
C:\rtools44\x86_64-w64-mingw32.static.posix\bin\ar.exe: `u' modifier ignored since `D' is the default (see `U')
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/neato_layout'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
/bin/sh ../../libtool --mode=install /usr/bin/install -c libgvplugin_neato_layout.la '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib'
libtool: install: /usr/bin/install -c .libs/libgvplugin_neato_layout.lai /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_neato_layout.la
libtool: install: /usr/bin/install -c .libs/libgvplugin_neato_layout.a /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_neato_layout.a
libtool: install: chmod 644 /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_neato_layout.a
libtool: install: ranlib /e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/libgvplugin_neato_layout.a
----------------------------------------------------------------------
Libraries have been installed in:
/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib
If you ever happen to want to link against installed libraries
in a given directory, LIBDIR, you must either use libtool, and
specify the full pathname of the library, or use the `-LLIBDIR'
flag during linking and do at least one of the following:
- add LIBDIR to the `PATH' environment variable
during execution
- add LIBDIR to the `LD_RUN_PATH' environment variable
during linking
- use the `-LLIBDIR' linker flag
See any operating system documentation about shared libraries for
more information, such as the ld(1) and ld.so(8) manual pages.
----------------------------------------------------------------------
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/neato_layout'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin/neato_layout'
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin'
make[4]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin'
make[4]: Nothing to be done for 'install-exec-am'.
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin'
make[2]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz/plugin'
make[2]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz'
make[3]: Entering directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz'
make[3]: Nothing to be done for 'install-exec-am'.
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man7'
/usr/bin/install -c -m 644 graphviz.7 '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/man/man7'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
/usr/bin/install -c -m 644 graphviz_version.h '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz'
/usr/bin/mkdir -p '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc'
/usr/bin/install -c -m 644 AUTHORS COPYING ChangeLog NEWS cpl1.0.txt '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/share/graphviz/doc'
make[3]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz'
make[2]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz'
make[1]: Leaving directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/graphviz'
cp: -r not specified; omitting directory '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/pkgconfig'
cp: cannot stat '/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/lib/graphviz/*': No such file or directory
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking for deflateBound in -lz... yes
checking for stdbool.h that conforms to C99... yes
checking for _Bool... yes
checking for whether compiler has bool... yes
configure.win: Using the following compilation and linking flags for Rgraphviz
configure.win: PKG_CFLAGS= -I/e/biocbuild/bbs-3.21-bioc/meat/Rgraphviz/src/libwinucrt/include/graphviz
configure.win: PKG_LIBS=libxdot.a libgvplugin_dot_layout.a libgvplugin_neato_layout.a libgvplugin_core.a libgvc.a libpathplan.a libgraph.a libcdt.a -lz
configure.win: GVIZ_DEFS=-DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1
configure.win: Compiling using Graphviz version: '2.28.0'.
configure.win: Using bundled Graphviz: 'TRUE'.
configure.win: creating ./config.status
config.status: creating R/graphviz_build_version.R
config.status: creating src/Makevars
** libs
using C compiler: 'gcc.exe (GCC) 13.3.0'
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c LL_funcs.c -o LL_funcs.o
LL_funcs.c: In function 'Rgraphviz_agopenSimple':
LL_funcs.c:430:29: warning: variable 'curNode' set but not used [-Wunused-but-set-variable]
430 | Agnode_t *head, *tail, *curNode;
| ^~~~~~~
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Rgraphviz.c -o Rgraphviz.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RgraphvizInit.c -o RgraphvizInit.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c agopen.c -o agopen.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c agread.c -o agread.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c agwrite.c -o agwrite.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c bezier.c -o bezier.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c buildEdgeList.c -o buildEdgeList.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c buildNodeList.c -o buildNodeList.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c doLayout.c -o doLayout.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c graphvizVersion.c -o graphvizVersion.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -Ilibwinucrt/include/graphviz -fcommon -DHAVE_STDBOOL_H=1 -DHAVE_BOOL=1 -DGRAPHVIZ_MAJOR=2 -DGRAPHVIZ_MINOR=28 -DGRAPHVIZ_STATIC -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c init.c -o init.o
gcc -shared -s -static-libgcc -o Rgraphviz.dll tmp.def LL_funcs.o Rgraphviz.o RgraphvizInit.o agopen.o agread.o agwrite.o bezier.o buildEdgeList.o buildNodeList.o doLayout.o graphvizVersion.o init.o libwinucrt/lib/libxdot.a libwinucrt/lib/libgvplugin_dot_layout.a libwinucrt/lib/libgvplugin_neato_layout.a libwinucrt/lib/libgvplugin_core.a libwinucrt/lib/libgvc.a libwinucrt/lib/libpathplan.a libwinucrt/lib/libgraph.a libwinucrt/lib/libcdt.a -lz -lm -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-Rgraphviz/00new/Rgraphviz/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (Rgraphviz)
