Compilation Error: co_ca symbol not found in io_utils module when building makestr.x

[KylinGuo]

When compiling enumlib-2.0.5 with make F90=gfortran makestr.x, the build fails with the error:

$ make F90=gfortran makestr.x
make -C ../symlib/src
make[1]: Entering directory '/home/guoqilin/Downloads/enumlib-2.0.5/symlib-2.0.2/src'
make[1]: Nothing to be done for 'all'.
make[1]: Leaving directory '/home/guoqilin/Downloads/enumlib-2.0.5/symlib-2.0.2/src'
sed -i.bak "s/\(write(23,'(A)')\)\(.*\)/\1 \"`git describe --tags --dirty --abbrev=4`\"/" derivative_structure_generator.f90
fatal: not a git repository (or any of the parent directories): .git
gfortran -fPIC -g -fbounds-check -Wall -ffree-line-length-none -fno-underscoring -I../symlib/src -c io_utils.f90
io_utils.f90:52:98:

   52 |   subroutine read_struct_enum_out(title,LatDim,pLV,nD,d,k,eq,Nmin,Nmax,eps,full,label,digit,cRange,fname)
      |                                                                                                  1
Warning: Unused dummy argument ‘crange’ at (1) [-Wunused-dummy-argument]
gfortran -fPIC -g -fbounds-check -Wall -ffree-line-length-none -fno-underscoring -I../symlib/src -c derivative_structure_generator.f90
derivative_structure_generator.f90:1600:17:

 1600 |     size_count = size_count + this_count*nHNF
      |                 1
Warning: Possible change of value in conversion from INTEGER(8) to INTEGER(4) at (1) [-Wconversion]
derivative_structure_generator.f90:1601:18:

 1601 |     total_count = total_count + this_count*nHNF
      |                  1
Warning: Possible change of value in conversion from INTEGER(8) to INTEGER(4) at (1) [-Wconversion]
ar ru libenum.a io_utils.o derivative_structure_generator.o
ar: `u' modifier ignored since `D' is the default (see `U')
ranlib  libenum.a
gfortran -fPIC -g -fbounds-check -Wall -ffree-line-length-none -fno-underscoring -I../symlib/src -c ../aux_src/makeStr.f90
../aux_src/makeStr.f90:9:19:

    9 | use io_utils, only: co_ca
      |                   1
Error: Symbol ‘co_ca’ referenced at (1) not found in module ‘io_utils’
make: *** [Makefile:128: makeStr.o] Error 1

The build fails because the compiler cannot find co_ca in the io_utils module, despite the subroutine being present in io_utils.f90.

[glwhart]

Did you ever get this sorted out? I don't have this problem on my end. Gus Hart Professor, Physics and Astronomy Biophysics Group http://bsg.byu.edu <http://msg.byu.edu>

…

On Tue, Apr 1, 2025 at 8:02 AM KylinGuo ***@***.***> wrote: When compiling enumlib-2.0.5 with make F90=gfortran makestr.x, the build fails with the error: $ make F90=gfortran makestr.x make -C ../symlib/src make[1]: Entering directory '/home/guoqilin/Downloads/enumlib-2.0.5/symlib-2.0.2/src' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/home/guoqilin/Downloads/enumlib-2.0.5/symlib-2.0.2/src' sed -i.bak "s/\(write(23,'(A)')\)\(.*\)/\1 \"`git describe --tags --dirty --abbrev=4`\"/" derivative_structure_generator.f90 fatal: not a git repository (or any of the parent directories): .git gfortran -fPIC -g -fbounds-check -Wall -ffree-line-length-none -fno-underscoring -I../symlib/src -c io_utils.f90 io_utils.f90:52:98: 52 | subroutine read_struct_enum_out(title,LatDim,pLV,nD,d,k,eq,Nmin,Nmax,eps,full,label,digit,cRange,fname) | 1 Warning: Unused dummy argument ‘crange’ at (1) [-Wunused-dummy-argument] gfortran -fPIC -g -fbounds-check -Wall -ffree-line-length-none -fno-underscoring -I../symlib/src -c derivative_structure_generator.f90 derivative_structure_generator.f90:1600:17: 1600 | size_count = size_count + this_count*nHNF | 1 Warning: Possible change of value in conversion from INTEGER(8) to INTEGER(4) at (1) [-Wconversion] derivative_structure_generator.f90:1601:18: 1601 | total_count = total_count + this_count*nHNF | 1 Warning: Possible change of value in conversion from INTEGER(8) to INTEGER(4) at (1) [-Wconversion] ar ru libenum.a io_utils.o derivative_structure_generator.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libenum.a gfortran -fPIC -g -fbounds-check -Wall -ffree-line-length-none -fno-underscoring -I../symlib/src -c ../aux_src/makeStr.f90 ../aux_src/makeStr.f90:9:19: 9 | use io_utils, only: co_ca | 1 Error: Symbol ‘co_ca’ referenced at (1) not found in module ‘io_utils’ make: *** [Makefile:128: makeStr.o] Error 1 The build fails because the compiler cannot find co_ca in the io_utils module, despite the subroutine being present in io_utils.f90. — Reply to this email directly, view it on GitHub <#130>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AB3UNGAC2D443BYMDIVBA6L2XKL6XAVCNFSM6AAAAAB2HAEB2GVHI2DSMVQWIX3LMV43ASLTON2WKOZSHE3DGNJVGU2DGNA> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***> [image: KylinGuo]*KylinGuo* created an issue (msg-byu/enumlib#130) <#130> When compiling enumlib-2.0.5 with make F90=gfortran makestr.x, the build fails with the error: $ make F90=gfortran makestr.x make -C ../symlib/src make[1]: Entering directory '/home/guoqilin/Downloads/enumlib-2.0.5/symlib-2.0.2/src' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/home/guoqilin/Downloads/enumlib-2.0.5/symlib-2.0.2/src' sed -i.bak "s/\(write(23,'(A)')\)\(.*\)/\1 \"`git describe --tags --dirty --abbrev=4`\"/" derivative_structure_generator.f90 fatal: not a git repository (or any of the parent directories): .git gfortran -fPIC -g -fbounds-check -Wall -ffree-line-length-none -fno-underscoring -I../symlib/src -c io_utils.f90 io_utils.f90:52:98: 52 | subroutine read_struct_enum_out(title,LatDim,pLV,nD,d,k,eq,Nmin,Nmax,eps,full,label,digit,cRange,fname) | 1 Warning: Unused dummy argument ‘crange’ at (1) [-Wunused-dummy-argument] gfortran -fPIC -g -fbounds-check -Wall -ffree-line-length-none -fno-underscoring -I../symlib/src -c derivative_structure_generator.f90 derivative_structure_generator.f90:1600:17: 1600 | size_count = size_count + this_count*nHNF | 1 Warning: Possible change of value in conversion from INTEGER(8) to INTEGER(4) at (1) [-Wconversion] derivative_structure_generator.f90:1601:18: 1601 | total_count = total_count + this_count*nHNF | 1 Warning: Possible change of value in conversion from INTEGER(8) to INTEGER(4) at (1) [-Wconversion] ar ru libenum.a io_utils.o derivative_structure_generator.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libenum.a gfortran -fPIC -g -fbounds-check -Wall -ffree-line-length-none -fno-underscoring -I../symlib/src -c ../aux_src/makeStr.f90 ../aux_src/makeStr.f90:9:19: 9 | use io_utils, only: co_ca | 1 Error: Symbol ‘co_ca’ referenced at (1) not found in module ‘io_utils’ make: *** [Makefile:128: makeStr.o] Error 1 The build fails because the compiler cannot find co_ca in the io_utils module, despite the subroutine being present in io_utils.f90. — Reply to this email directly, view it on GitHub <#130>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AB3UNGAC2D443BYMDIVBA6L2XKL6XAVCNFSM6AAAAAB2HAEB2GVHI2DSMVQWIX3LMV43ASLTON2WKOZSHE3DGNJVGU2DGNA> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

[KylinGuo]

Did you ever get this sorted out? I don't have this problem on my end.

Gus Hart
Professor, Physics and Astronomy
Biophysics Group http://bsg.byu.edu http://msg.byu.edu
…

Dear Prof. Gus Hart,

Thank you for your message!

I suspect the issue may be related to my system environment. I should have mentioned earlier that I'm using a fairly recent setup:

$ uname -a
Linux dev-server 6.11.0-24-generic #24~24.04.1-Ubuntu SMP PREEMPT_DYNAMIC Tue Mar 25 20:14:34 UTC 2 x86_64 x86_64 x86_64 GNU/Linux

$ gfortran -v
Using built-in specs.
COLLECT_GCC=gfortran
COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-linux-gnu/13/lto-wrapper
OFFLOAD_TARGET_NAMES=nvptx-none:amdgcn-amdhsa
OFFLOAD_TARGET_DEFAULT=1
Target: x86_64-linux-gnu
Configured with: ../src/configure -v --with-pkgversion='Ubuntu 13.3.0-6ubuntu2~24.04' --with-bugurl=file:///usr/share/doc/gcc-13/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2 --prefix=/usr --with-gcc-major-version-only --program-suffix=-13 --program-prefix=x86_64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-vtable-verify --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --disable-werror --enable-cet --with-arch-32=i686 --with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-offload-targets=nvptx-none=/build/gcc-13-fG75Ri/gcc-13-13.3.0/debian/tmp-nvptx/usr,amdgcn-amdhsa=/build/gcc-13-fG75Ri/gcc-13-13.3.0/debian/tmp-gcn/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2
Thread model: posix
Supported LTO compression algorithms: zlib zstd
gcc version 13.3.0 (Ubuntu 13.3.0-6ubuntu2~24.04) 

Given that my gfortran compiler is quite recent, I suspect that compatibility issues with older precompiled binaries might be the root cause.

I eventually gave up on compiling it manually, and found an simpler workaround. I located the correct version of libgfortran.so.5.0.0 and placed it in my Python environment at:

/home/<USERNAME>/miniconda3/envs/pymatgen_env/lib

Then, I created the following symbolic links to satisfy the library dependencies:

libgfortran.so -> libgfortran.so.5.0.0  
libgfortran.so.5 -> libgfortran.so.5.0.0

This resolved the issue, and it seems to be safe since it doesn't interfere with the system-wide gfortran compiler.

Best regards,
Qilin.