=> Bootstrap dependency digest>=20211023: found digest-20220214
===> Installing for R-git2r-0.33.0
=> Generating pre-install file lists
=> Creating installation directories
* installing *source* package 'git2r' ...
** package 'git2r' successfully unpacked and MD5 sums checked
** using staged installation
checking build system type... x86_64-apple-darwin23.4.0
checking host system type... x86_64-apple-darwin23.4.0
checking pkg-config is at least version 0.9.0... no
checking for brew... no
checking whether the libgit2 version will work in git2r... no
configure: package dependency requirement 'libgit2 >= 0.26.0' could not be satisfied.
-----------------------------------------------------------------------
Unable to find the libgit2 library on this system. Building 'git2r'
using the bundled source of the libgit2 library.
To build git2r with a system installation of libgit2, please install:
libgit2-dev (package on e.g. Debian and Ubuntu)
libgit2-devel (package on e.g. Fedora, CentOS and RHEL)
libgit2 (Homebrew package on OS X)
and try again.
If the libgit2 library is installed on your system but the git2r
configuration is unable to find it, you can specify the include and
lib path to libgit2 with:
given you downloaded a tar-gz archive:
R CMD INSTALL git2r-.tar.gz --configure-vars='INCLUDE_DIR=/path/to/include LIB_DIR=/path/to/lib'
or cloned the GitHub git2r repository into a directory:
R CMD INSTALL git2r/ --configure-vars='INCLUDE_DIR=/path/to/include LIB_DIR=/path/to/lib'
or download and install git2r in R using
install.packages('git2r', type='source', configure.vars='LIB_DIR=-L/path/to/libs INCLUDE_DIR=-I/path/to/headers')
On macOS, another possibility is to let the configuration
automatically download the libgit2 library from the Homebrew
package manager with:
R CMD INSTALL git2r-.tar.gz --configure-vars='autobrew=yes'
or
R CMD INSTALL git2r/ --configure-vars='autobrew=yes'
or
install.packages('git2r', type='source', configure.vars='autobrew=yes')
-----------------------------------------------------------------------
configure: attempting configuration of bundled libgit2
checking for gcc... clang
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether clang accepts -g... yes
checking for clang option to enable C11 features... none needed
checking for clang options needed to detect all undeclared functions... -fno-builtin
checking whether poll is declared... yes
checking whether select is declared... yes
checking size of void*... 8
checking for library containing inflate... -lz
configure: WARNING:
---------------------------------------------
Unable to find the LibSSH2 (ver >= v1.8)
library on this system. Building git2r
without support for SSH transport.
To build with SSH support, please install:
libssh2-1-dev (package on e.g. Debian and Ubuntu)
libssh2-devel (package on e.g. Fedora, CentOS and RHEL)
libssh2 (Homebrew package on OS X)
and try again.
If the LibSSH2 library is installed on
your system but the git2r configuration
is unable to find it, you can specify
the include and lib path to LibSSH2 with:
R CMD INSTALL git2r --configure-vars='LIBS=-L/path/to/libs CPPFLAGS=-I/path/to/headers'
---------------------------------------------
checking for ld used by clang... /Library/Developer/CommandLineTools/usr/bin/ld
checking if the linker (/Library/Developer/CommandLineTools/usr/bin/ld) is GNU ld... no
checking for shared library run path origin... done
checking how to run the C preprocessor... clang -E
checking for grep that handles long lines and -e... /Users/pbulk/build/devel/R-git2r/work/.tools/bin/grep
checking for egrep... /Users/pbulk/build/devel/R-git2r/work/.tools/bin/grep -E
checking for iconv... yes
checking for working iconv... yes
checking how to link with libiconv... -liconv
checking for iconv declaration...
extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft);
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for struct stat.st_mtim... no
checking for struct stat.st_mtimespec... yes
checking for struct stat.st_mtime_nsec... no
checking for struct stat.st_mtimespec.tv_nsec... yes
checking for futimens... yes
checking for qsort_r... yes
checking for qsort_s... no
----- Results of the git2r package configure -----
HTTPS transport......................: yes
LibSSH2 to enable the SSH transport..: no
--------------------------------------------------
configure: creating ./config.status
config.status: creating src/Makevars_libgit2
Warning in file(con, "r") :
cannot open file '/var/db/timezone/zoneinfo/+VERSION': No such file or directory
Warning in as.POSIXlt.POSIXct(x, tz) :
system timezone name is unknown: set environment variable TZ
** libs
using C compiler: 'Apple clang version 15.0.0 (clang-1500.3.9.4)'
using SDK: 'MacOSX14.4.sdk'
clang -I"/opt/pkg/lib/R/include" -DNDEBUG -I. -Ilibgit2/src/libgit2 -Ilibgit2/src/util -Ilibgit2/include -Ilibgit2/deps/http-parser -Ilibgit2/deps/xdiff -I/opt/pkg/include -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -D_REENTRANT -I/opt/pkg/include/freetype2 -I/opt/pkg/include/harfbuzz -I/opt/pkg/include/ncurses -DLDAP_DEPRECATED -DGIT_IO_POLL -DGIT_IO_SELECT -DGIT_ARCH_64 -DGIT_SECURE_TRANSPORT=1 -DGIT_HTTPS=1 -DGIT_USE_ICONV -D_GNU_SOURCE -D_FILE_OFFSET_BITS=64 -DLIBGIT2_NO_FEATURES_H -DR_NO_REMAP -DSTRICT_R_HEADERS -DGIT_SHA1_COLLISIONDETECT=1 -DSHA1DC_NO_STANDARD_INCLUDES=1 -DSHA1DC_CUSTOM_INCLUDE_SHA1_C=\"common.h\" -DSHA1DC_CUSTOM_INCLUDE_UBC_CHECK_C=\"common.h\" -DGIT_USE_STAT_MTIMESPEC -DGIT_USE_NSEC -DHAVE_FUTIMENS -DHAVE_QSORT_R -DGIT2R_HAVE_BUF_DISPOSE -DGIT2R_HAVE_OBJECT_ANY -DGIT2R_HAVE_GIT_ERROR -DGIT2R_LIBGIT2_V0_99_0_RENAMES -DGIT_REGEX_REGCOMP -DTHREADSAFE=OFF -I/opt/pkg/include -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -D_REENTRANT -I/opt/pkg/include/freetype2 -I/opt/pkg/include/harfbuzz -I/opt/pkg/include/ncurses -DLDAP_DEPRECATED -fPIC -pipe -Os -I/opt/pkg/include -I/opt/pkg/include/glib-2.0 -I/opt/pkg/include/gio-unix-2.0 -I/opt/pkg/lib/glib-2.0/include -D_REENTRANT -I/opt/pkg/include/freetype2 -I/opt/pkg/include/harfbuzz -I/opt/pkg/include/ncurses -DLDAP_DEPRECATED -c libgit2/src/libgit2/annotated_commit.c -o libgit2/src/libgit2/annotated_commit.o
In file included from libgit2/src/libgit2/annotated_commit.c:10:
In file included from libgit2/src/libgit2/refs.h:17:
In file included from libgit2/src/libgit2/oid.h:14:
libgit2/src/util/hash.h:31:23: error: field has incomplete type 'git_hash_sha256_ctx' (aka 'struct git_hash_sha256_ctx')
git_hash_sha256_ctx sha256;
^
libgit2/src/util/hash/sha.h:14:16: note: forward declaration of 'struct git_hash_sha256_ctx'
typedef struct git_hash_sha256_ctx git_hash_sha256_ctx;
^
1 error generated.
*** Error code 1
Stop.
make: stopped in /Users/pbulk/build/devel/R-git2r/work/git2r/src
ERROR: compilation failed for package 'git2r'
* removing '/Users/pbulk/build/devel/R-git2r/work/.destdir/opt/pkg/lib/R/library/git2r'
*** Error code 1
Stop.
bmake[1]: stopped in /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-x86_64/devel/R-git2r
*** Error code 1
Stop.
bmake: stopped in /Volumes/data/jenkins/workspace/pkgsrc-macos-trunk-x86_64/devel/R-git2r