Failed Reason

Failed to install dependency package :
------------------------------------------------
==> Warning: config:terminal_title has been replaced by install_status and is ignored
==> Warning: Failed to initialize repository: '$spack/var/spack/repos/local'.
No repo.yaml found in '$spack/var/spack/repos/local'
To remove the bad repository, run this command:
spack repo rm $spack/var/spack/repos/local
[+] /usr (external libxml2-2.9.7-psbfksllqwmljlwwnb24enmihejo6ws6)
[+] /usr (external gmake-4.2.1-eszqmok6vi6wxcmklx6bqloeidbh25kb)
==> Installing cuda-11.8.0-fromhy6a7tkkaoszfbrbl7ldqykems5b [3/4]
==> No binary for cuda-11.8.0-fromhy6a7tkkaoszfbrbl7ldqykems5b found: installing from source
==> Fetching https://developer.download.nvidia.com/compute/cuda/11.8.0/local_installers/cuda_11.8.0_520.61.05_linux_sbsa.run
==> No patches needed for cuda
==> cuda: Executing phase: 'install'
==> cuda: Successfully installed cuda-11.8.0-fromhy6a7tkkaoszfbrbl7ldqykems5b
Stage: 1m 54.85s. Install: 9m 6.68s. Post-install: 1m 29.71s. Total: 12m 31.55s
[+] /vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spack/opt/spack/linux-rhel8-a64fx/fj-4.10.0/cuda-11.8.0-fromhy6a7tkkaoszfbrbl7ldqykems5b
==> Installing autodock-gpu-develop-aqvfpd3o2fwmfkrnha252rlhymx7e733 [4/4]
==> No binary for autodock-gpu-develop-aqvfpd3o2fwmfkrnha252rlhymx7e733 found: installing from source
==> No patches needed for autodock-gpu
==> autodock-gpu: Executing phase: 'edit'
==> autodock-gpu: Executing phase: 'build'
==> Error: ProcessError: Command exited with status 2:
'make' '-j16' 'DEVICE=CUDA' 'GPU_INCLUDE_PATH=/vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spack/opt/spack/linux-rhel8-a64fx/fj-4.10.0/cuda-11.8.0-fromhy6a7tkkaoszfbrbl7ldqykems5b/include' 'GPU_LIBRARY_PATH=/vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spack/opt/spack/linux-rhel8-a64fx/fj-4.10.0/cuda-11.8.0-fromhy6a7tkkaoszfbrbl7ldqykems5b/lib64' 'OVERLAP=OFF'

15 errors found in build log:
88 ptxas info : Used 13 registers, 4 bytes smem, 320 bytes cmem[0]
89 ptxas info : Compiling entry function '_Z23gpu_calc_initpop_kern
elPfS_' for 'sm_60'
90 ptxas info : Function properties for _Z23gpu_calc_initpop_kernel
PfS_
91 0 bytes stack frame, 0 bytes spill stores, 0 bytes spill loads
92 ptxas info : Used 48 registers, 3076 bytes smem, 336 bytes cmem[
0], 36 bytes cmem[2]
93 In file included from ./host/src/performdocking.cpp:34:
>> 94 ./host/inc/performdocking.h:32:10: fatal error: cuda.h: No such fil
e or directory
95 #include <cuda.h>
96 ^~~~~~~~
97 compilation terminated.
98 ptxas info : 0 bytes gmem, 264 bytes cmem[3]
99 ptxas info : Compiling entry function '_Z27gpu_gradient_minAdam_
kernelPfS_' for 'sm_61'
100 ptxas info : Function properties for _Z27gpu_gradient_minAdam_ke
rnelPfS_

...

149 g++ \
150 ./host/src/calcenergy.cpp ./host/src/getparameters.cpp ./host/src/m
ain.cpp ./host/src/miscellaneous.cpp ./host/src/performdocking.cpp
./host/src/processgrid.cpp ./host/src/processligand.cpp ./host/src/
processresult.cpp ./host/src/setup.cpp \
151 -std=c++17 -I./common -I./host/inc -I/vol0003/rccs-sdt/data/a01008/
spack-all-test/env-20240227/spack/opt/spack/linux-rhel8-a64fx/fj-4.
10.0/cuda-11.8.0-fromhy6a7tkkaoszfbrbl7ldqykems5b/include -I./cuda
-L/vol0003/rccs-sdt/data/a01008/spack-all-test/env-20240227/spack/o
pt/spack/linux-rhel8-a64fx/fj-4.10.0/cuda-11.8.0-fromhy6a7tkkaoszfb
rbl7ldqykems5b/lib64 -Wl,-rpath=/vol0003/rccs-sdt/data/a01008/spack
-all-test/env-20240227/spack/opt/spack/linux-rhel8-a64fx/fj-4.10.0/
cuda-11.8.0-fromhy6a7tkkaoszfbrbl7ldqykems5b/lib64: -DVERSION=\"f5c
f6ffdd0c5b3f113d5cc424fabee51df04da7e\" \
152 kernels.o -lcurand -lcudart \
153 -o./bin/autodock_gpu_64wi \
154 -DGPU_DEVICE -DN64WI -O3
>> 155 make: *** [Makefile.Cuda:191: otool] Error 1
156 make: *** Waiting for unfinished jobs....
157 ./host/src/getparameters.cpp: In function 'int parse_dpf(Dockpars*,
Gridinfo*, FileList&, bool)':
158 ./host/src/getparameters.cpp:215:16: warning: 'char* strncat(char*,
const char*, size_t)' specified bound depends on the length of the
source argument [-Wstringop-overflow=]
159 strncat(strncpy(mypars->flexresfile, dpf_path.c_str(), dpf
_path.size()), argstr, len);
160 ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
~~~~~~~~~~~~~~~~~~~~~~~~~~~
161 ./host/src/getparameters.cpp:213:21: note: length computed here

...

171 strncat(strncpy(mypars->ligandfile, dpf_path.c_str(), dpf
_path.size()), argstr, len);
172 ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
~~~~~~~~~~~~~~~~~~~~~~~~~~~
173 ./host/src/getparameters.cpp:201:22: note: length computed here
174 len = strlen(argstr);
175 ~~~~~~^~~~~~~~
176 /data/rccs-sdt/a01008/tmpdir/ccJJsh8D.o: In function `std::filesyst
em::__cxx11::path::path<std::__cxx11::basic_string<char, std::char_
traits<char>, std::allocator<char> >, std::filesystem::__cxx11::pat
h>(std::__cxx11::basic_string<char, std::char_traits<char>, std::al
locator<char> > const&, std::filesystem::__cxx11::path::format) [cl
one .constprop.308]':
>> 177 getparameters.cpp:(.text+0x1528): undefined reference to `std::file
system::__cxx11::path::_M_split_cmpts()'
178 /data/rccs-sdt/a01008/tmpdir/ccJJsh8D.o: In function `initial_comma
ndpars(int const*, char**, _Dockpars*, _Gridinfo*, FileList&)':
>> 179 getparameters.cpp:(.text+0x7b58): undefined reference to `std::file
system::__cxx11::directory_iterator::directory_iterator(std::filesy
stem::__cxx11::path const&, std::filesystem::directory_options, std
::error_code*)'
>> 180 getparameters.cpp:(.text+0x7bc8): undefined reference to `std::file
system::__cxx11::directory_iterator::operator*() const'
>> 181 getparameters.cpp:(.text+0x7bec): undefined reference to `std::file
system::__cxx11::path::compare(std::filesystem::__cxx11::path const
&) const'
>> 182 getparameters.cpp:(.text+0x7c44): undefined reference to `std::file
system::__cxx11::directory_iterator::operator++()'
183 /data/rccs-sdt/a01008/tmpdir/ccJJsh8D.o: In function `get_filelist(
int const*, char**, _Dockpars*, _Gridinfo*, FileList&)':
>> 184 getparameters.cpp:(.text+0x8af8): undefined reference to `std::file
system::__cxx11::directory_iterator::directory_iterator(std::filesy
stem::__cxx11::path const&, std::filesystem::directory_options, std
::error_code*)'
>> 185 getparameters.cpp:(.text+0x8b6c): undefined reference to `std::file
system::__cxx11::directory_iterator::operator*() const'
>> 186 getparameters.cpp:(.text+0x8b94): undefined reference to `std::file
system::__cxx11::path::compare(std::filesystem::__cxx11::path const
&) const'
>> 187 getparameters.cpp:(.text+0x8bec): undefined reference to `std::file
system::__cxx11::directory_iterator::operator++()'
188 /data/rccs-sdt/a01008/tmpdir/ccJJsh8D.o: In function `std::filesyst
em::__cxx11::path::extension() const':
>> 189 getparameters.cpp:(.text._ZNKSt10filesystem7__cxx114path9extensionE
v[_ZNKSt10filesystem7__cxx114path9extensionEv]+0x10): undefined ref
erence to `std::filesystem::__cxx11::path::_M_find_extension() cons
t'
>> 190 getparameters.cpp:(.text._ZNKSt10filesystem7__cxx114path9extensionE
v[_ZNKSt10filesystem7__cxx114path9extensionEv]+0xcc): undefined ref
erence to `std::filesystem::__cxx11::path::_M_split_cmpts()'
>> 191 collect2: error: ld returned 1 exit status
>> 192 make: *** [Makefile.Cuda:199: odock] Error 1

See build log for details:
/data/rccs-sdt/a01008/tmpdir/spack-stage/spack-stage-autodock-gpu-develop-aqvfpd3o2fwmfkrnha252rlhymx7e733/spack-build-out.txt