I'm quite new to both HDF5 as well as Fortran 90. I am trying to compile a program which runs fine without HDF5. I found online that I need to use flags from the command h5fc -show, and the output is like such
x86_64-conda_cos6-linux-gnu-gfortran -I/home/tmph/anaconda3/include -L/home/tmph/anaconda3/lib /home/tmph/anaconda3/lib/libhdf5hl_fortran.a /home/tmph/anaconda3/lib/libhdf5_hl.a /home/tmph/anaconda3/lib/libhdf5_fortran.a /home/tmph/anaconda3/lib/libhdf5.a -L/home/tmph/anaconda3/lib -Wl,-O2 -Wl,--sort-common -Wl,--as-needed -Wl,-z,relro -Wl,-z,now -Wl,--disable-new-dtags -Wl,-rpath,/home/tmph/anaconda3/lib -L/home/tmph/anaconda3/lib -lrt -lpthread -lz -ldl -lm -Wl,-rpath -Wl,/home/tmph/anaconda3/lib
(Most of my day-to-day work is actually in Python, hence anaconda3)
I try to compile with
[...]
LDLIBS=-lhdf5_fortran -lhdf5
LDINC=-I/home/tmph/anaconda3/include
LDFLAGS=-L/home/tmph/anaconda3/lib
$(OBJ_DIR)%.o: $(SRC_DIR)%.F90
$(FC) $(FCFLAGS) $(LDINC) -c $< -J $(SRC_DIR) -o $@
exec: $(SOURCE_OBJECTS) $(MAIN_OBJECT)
$(LC) $(FCFLAGS) $(LDINC) -o $(exec_name) $^ $(LDFLAGS) $(LDLIBS)
but I am met with the error
12 | use HDF5 | 1 Fatal Error: Cannot read module file ‘/home/tmph/anaconda3/include/hdf5.mod’ opened at (1), because it was created by a different version of GNU Fortran compilation terminated.
When I run gfortran --version I get the output
GNU Fortran (GCC) 10.2.0 Copyright (C) 2020 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
but I don't know how to check what version was used for the hdf5.mod file in anaconda. Is it a problem with the fact that it is from Anaconda? Need I install another one? If so, how? Must I rebuild the module somehow (and would this mess up some python packages)? Perhaps I need to use more of the flags? (I used the ones I thought made sense and was similar to makefiles I found on github, this one for example)
I also tried modifying an example Makefile, but I have no such libz.a or libsz.a that I know of, and in the end I get the same error.
I am running Manjaro, in case that matters. I also tried installing HDF5 with pacman -S hdf5, which works but didn't change anything.
Edit: it turns out when you install Anaconda, it adds acanconda3/bin to the front of the path. This contained an outdated version of h5fc, which is where the confusion came from. If I use the output from /usr/bin/h5fc, then the compilation runs without any problems.
