I suppose you tried to use this setup.py: https://github.com/breathe/coffee_conda_package/blob/master/0001-Add-alternative-setup.py-script.patch
It's not well written IMHO... anyway this is not the problem. I suppose you also downloaded the required sources from here: https://data.mendeley.com/datasets/s2x4d542dc/1 It seems the problem is that the above sources are generated by an old version of Cython: https://github.com/mcfletch/pyopengl/issues/11 You have "simply" to enter any subdir of PoissonSolver that ends with "_cy", remove the .c file inside and do: python setup.py build_ext --inplace After that, you'll be able to compile. The result is an ELF file. On my PC, the generated file is PoissonSolver/PoissonSolver/ps3d.cpython-38-x86_64-linux-gnu.so On Mon, 9 Mar 2020 at 15:27, Tim Ko <thardaw...@gmail.com> wrote: > > Hello, > > I am trying to install a custom Python code but ran into an error. The error > presumably associated with cython. I tried a different compiler since Intel > compiler often crashes when using cython, but couldn't get it working. > > Attached is the installation error log. I have installed and updated all > essential packages such as numpy and scipy. Could someone please give me > advice to resolve this issue? Many thanks in advance. > > Sincerely, > TK > > > =================== > $ python setup.py build_ext -b PoissonSolver/ > running build_ext > skipping 'PoissonSolver/MV_2D_cy/matvec2D.c' Cython extension (up-to-date) > skipping 'PoissonSolver/MV_1D_cy/matvec1D.c' Cython extension (up-to-date) > skipping 'PoissonSolver/PS_3D_cy/ps3d.c' Cython extension (up-to-date) > building 'matvec2D' extension > icc -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC > -I/home01/r782a03/.conda/envs/hko_env/lib/python3.7/site-packages/numpy/core/include > -I/home01/r782a03/.conda/envs/hko_env/include/python3.7m -c > PoissonSolver/MV_2D_cy/matvec2D.c -o > build/temp.linux-x86_64-3.7/PoissonSolver/MV_2D_cy/matvec2D.o -ffast-math > icc: command line warning #10006: ignoring unknown option '-ffast-math' > In file included from > /home01/r782a03/.conda/envs/hko_env/lib/python3.7/site-packages/numpy/core/include/numpy/ndarraytypes.h(1830), > from > /home01/r782a03/.conda/envs/hko_env/lib/python3.7/site-packages/numpy/core/include/numpy/ndarrayobject.h(12), > from > /home01/r782a03/.conda/envs/hko_env/lib/python3.7/site-packages/numpy/core/include/numpy/arrayobject.h(4), > from PoissonSolver/MV_2D_cy/matvec2D.c(232): > /home01/r782a03/.conda/envs/hko_env/lib/python3.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h(17): > warning #1224: #warning directive: "Using deprecated NumPy API, disable it > with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" > #warning "Using deprecated NumPy API, disable it with " \ > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17500): error: struct "_ts" has no field > "exc_type" > *type = tstate->exc_type; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17501): error: struct "_ts" has no field > "exc_value" > *value = tstate->exc_value; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17502): error: struct "_ts" has no field > "exc_traceback" > *tb = tstate->exc_traceback; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17514): error: struct "_ts" has no field > "exc_type" > tmp_type = tstate->exc_type; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17515): error: struct "_ts" has no field > "exc_value" > tmp_value = tstate->exc_value; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17516): error: struct "_ts" has no field > "exc_traceback" > tmp_tb = tstate->exc_traceback; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17517): error: struct "_ts" has no field > "exc_type" > tstate->exc_type = type; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17518): error: struct "_ts" has no field > "exc_value" > tstate->exc_value = value; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17519): error: struct "_ts" has no field > "exc_traceback" > tstate->exc_traceback = tb; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17562): error: struct "_ts" has no field > "exc_type" > tmp_type = tstate->exc_type; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17563): error: struct "_ts" has no field > "exc_value" > tmp_value = tstate->exc_value; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17564): error: struct "_ts" has no field > "exc_traceback" > tmp_tb = tstate->exc_traceback; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17565): error: struct "_ts" has no field > "exc_type" > tstate->exc_type = local_type; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17566): error: struct "_ts" has no field > "exc_value" > tstate->exc_value = local_value; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17567): error: struct "_ts" has no field > "exc_traceback" > tstate->exc_traceback = local_tb; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17589): error: struct "_ts" has no field > "exc_type" > tmp_type = tstate->exc_type; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17590): error: struct "_ts" has no field > "exc_value" > tmp_value = tstate->exc_value; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17591): error: struct "_ts" has no field > "exc_traceback" > tmp_tb = tstate->exc_traceback; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17592): error: struct "_ts" has no field > "exc_type" > tstate->exc_type = *type; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17593): error: struct "_ts" has no field > "exc_value" > tstate->exc_value = *value; > ^ > > PoissonSolver/MV_2D_cy/matvec2D.c(17594): error: struct "_ts" has no field > "exc_traceback" > tstate->exc_traceback = *tb; > ^ > > compilation aborted for PoissonSolver/MV_2D_cy/matvec2D.c (code 2) > error: command 'icc' failed with exit status 2 > =================== > -- > https://mail.python.org/mailman/listinfo/python-list -- https://mail.python.org/mailman/listinfo/python-list
