bsantyr
commented
11 months ago I'm having a similar issue on M1 Mac OS 14.2.
Any solution?
Here is my error log.
devtools::install_github("Mouse-Imaging-Centre/RMINC") Downloading GitHub repo Mouse-Imaging-Centre/RMINC@HEAD ── R CMD build ───────────────────────────────────────────────────────────────── checking for file ‘/private/var/folders/r9/yw_30hyx3ydfbfl42jfpq5240000gn/T/RtmpeQQtRa/remotes86b92033e3d3/Mouse-Imaging-Centre-RMINC-edfa0f4/DESCRIPTION’ ..✔ checking for file ‘/private/var/folders/r9/yw_30hyx3ydfbfl42jfpq5240000gn/T/RtmpeQQtRa/remotes86b92033e3d3/Mouse-Imaging-Centre-RMINC-edfa0f4/DESCRIPTION’ ─ preparing ‘RMINC’: ✔ checking DESCRIPTION meta-information ... ─ cleaning src ─ running ‘cleanup’ ─ checking for LF line-endings in source and make files and shell scripts ─ checking for empty or unneeded directories Removed empty directory ‘RMINC/etc’ ─ looking to see if a ‘data/datalist’ file should be added ─ building ‘RMINC_1.5.3.0.tar.gz’
- installing source package ‘RMINC’ ... ** using staged installation checking for gcc... /usr/local/bin/gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether /usr/local/bin/gcc accepts -g... yes checking for /usr/local/bin/gcc option to accept ISO C89... none needed checking whether we are using the GNU C++ compiler... yes checking whether clang++ -arch arm64 -std=gnu++17 accepts -g... yes checking how to run the C preprocessor... /usr/local/bin/gcc -E 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... rm: conftest.dSYM: is a directory rm: conftest.dSYM: is a directory 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 a sed that does not truncate output... /usr/bin/sed checking for gawk... no checking for mawk... no checking for nawk... no checking for awk... awk configure: Searching for libminc configure: MINC_TOOLKIT was specified configure: MINC_PATH set to /opt/minc/1.9.18 configure: override by setting the environment variable MINC_PATH configure: or by setting --with-build-path as a configure argument checking zlib.h usability... yes checking zlib.h presence... yes checking for zlib.h... yes checking for h5cc... /opt/minc/1.9.18/bin/h5cc checking for HDF5 libraries... clang: error: unknown argument: '-show' clang: error: unknown argument: '-show' clang: error: unknown argument: '-showconfig' clang: error: unknown argument: '-showconfig' clang: error: unknown argument: '-showconfig' yes (version ) checking hdf5.h usability... no checking hdf5.h presence... no checking for hdf5.h... no checking for H5Fcreate in -lhdf5... no configure: WARNING: Unable to compile HDF5 test program checking for main in -lhdf5_hl... no checking for matching HDF5 Fortran wrapper... no checking for mifree_name in -lminc2... no configure: error: minc2 not found ERROR: configuration failed for package ‘RMINC’
- removing ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/RMINC’
Warning message:
In i.p(...) :
installation of package ‘/var/folders/r9/yw_30hyx3ydfbfl42jfpq5240000gn/T//RtmpeQQtRa/file86b9a19f2c5/RMINC_1.5.3.0.tar.gz’ had non-zero exit status
ZaidaEMtzMo
vfonov
hannalemmik
christianlimberger
Hi everyone,
I'm having this problem installing RMINC on macOS:
I have set the MINC_PATH and also have done the recommended steps here https://github.com/Mouse-Imaging-Centre/RMINC/blob/master/INSTALL
Do you have any idea how to solve this? Thank you!