cuihantao/andesapp

Andes package for Pyodide

andesapp's Issues

Error linking with CLAPACK libraries

@rwl: I tried to build the image using your code but it failed. It looks like the iodide/pyodide:9 image is outdated, so I made an attempt to use Pyodide 0.19. The latest version is 0.21, but the image pyodide/pyodide-env:latest image does not come with the required Python 3.10.

I made some minor tweaks to the meta.yaml for SuiteSparse and F2CLAPACK because of the field source became mandatory. Then I ran into the issue of not being able to link to blas and lapack. It's the same issue when I tried to build kvxopt alone using the SuiteSparse and CLAPACK that came with 0.20 in a different Docker image.

I suspect the locations of the F2CLAPACK_WA and SuiteSparse-WA folders are incorrect. If you have any suggestions, let me know.

Installed /usr/src/pyodide-0.19.0/packages/.artifacts/lib/python/kvxopt-1.2.6.0-py3.9-linux-x86_64.egg
Processing dependencies for kvxopt==1.2.6.0
Finished processing dependencies for kvxopt==1.2.6.0
wasm-ld: error: unable to find library -llapack
wasm-ld: error: unable to find library -lblas
wasm-ld: error: unable to find library -lf2c
emcc: error: '/usr/src/pyodide-0.19.0/emsdk/emsdk/upstream/bin/wasm-ld -o build/lib.linux-x86_64-3.9/kvxopt/base.cpython-39-x86_64-linux-gnu.so --whole-archive -L/usr/src/pyodide-0.19.0/cpython/installs/python-3.9.5/lib/ build/temp.linux-x86_64-3.9/src/C/base.o build/temp.linux-x86_64-3.9/src/C/dense.o build/temp.linux-x86_64-3.9/src/C/sparse.o -L../../../F2CLAPACK/F2CLAPACK_WA -llapack -lblas -lf2c -L/usr/src/pyodide-0.19.0/emsdk/emsdk/upstream/emscripten/cache/sysroot/lib/wasm32-emscripten/pic --no-whole-archive -mllvm -combiner-global-alias-analysis=false -mllvm -enable-emscripten-sjlj -mllvm -disable-lsr --lto-legacy-pass-manager --allow-undefined --import-memory --strip-debug --export-all --no-gc-sections --experimental-pic -shared' failed (1)
[2022-08-11 21:40:29] Building package kvxopt...
[line 1 of 338]
emcc -O2 -g0 -fPIC -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -Wall -fPIC -I/usr/src/pyodide-0.19.0/cpython/installs/python-3.9.5/include/python3.9 -c src/C/base.c -o build/temp.linux-x86_64-3.9/src/C/base.o
[line 2 of 338]
emcc -O2 -g0 -fPIC -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -Wall -fPIC -I/usr/src/pyodide-0.19.0/cpython/installs/python-3.9.5/include/python3.9 -c src/C/dense.c -o build/temp.linux-x86_64-3.9/src/C/dense.o
[line 3 of 338]
emcc -O2 -g0 -fPIC -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -Wall -fPIC -I/usr/src/pyodide-0.19.0/cpython/installs/python-3.9.5/include/python3.9 -c src/C/sparse.c -o build/temp.linux-x86_64-3.9/src/C/sparse.o
[line 4 of 338]
emcc -O2 -g0 -s MODULARIZE=1 -s LINKABLE=1 -s EXPORT_ALL=1 -s WASM=1 -std=c++14 -s LZ4=1 -L /usr/src/pyodide-0.19.0/cpython/installs/python-3.9.5/lib/ -s SIDE_MODULE=1 build/temp.linux-x86_64-3.9/src/C/base.o build/temp.linux-x86_64-3.9/src/C/dense.o build/temp.linux-x86_64-3.9/src/C/sparse.o -L../../../F2CLAPACK/F2CLAPACK_WA -lm -llapack -lblas -lf2c -o build/lib.linux-x86_64-3.9/kvxopt/base.cpython-39-x86_64-linux-gnu.so
[2022-08-11 21:42:28] Failed building package kvxopt in 119.7 seconds.
[5/5] (thread 3) failed kvxopt in 120.50 s
    build_from_graph(pkg_map, outputdir, args)
  File "/usr/src/pyodide-0.19.0/pyodide-build/pyodide_build/buildall.py", line 397, in build_from_graph
    raise pkg
  File "/usr/src/pyodide-0.19.0/pyodide-build/pyodide_build/buildall.py", line 373, in builder
    pkg.build(outputdir, args)
  File "/usr/src/pyodide-0.19.0/pyodide-build/pyodide_build/buildall.py", line 141, in build
    p.check_returncode()
  File "/usr/local/lib/python3.9/subprocess.py", line 460, in check_returncode
    raise CalledProcessError(self.returncode, self.args, self.stdout,
subprocess.CalledProcessError: Command '['/usr/local/bin/python', '-m', 'pyodide_build', 'buildpkg', '/usr/src/pyodide-0.19.0/packages/kvxopt/meta.yaml', '--cflags', '-O2 -g0 -fPIC', '--cxxflags', '', '--ldflags', '-O2 -g0 -s MODULARIZE=1 -s LINKABLE=1 -s EXPORT_ALL=1 -s WASM=1 -std=c++14 -s LZ4=1 -L /usr/src/pyodide-0.19.0/cpython/installs/python-3.9.5/lib/  -s SIDE_MODULE=1', '--target-install-dir', '/usr/src/pyodide-0.19.0/cpython/installs/python-3.9.5', '--host-install-dir', '/usr/src/pyodide-0.19.0/packages/.artifacts', '--force-rebuild']' returned non-zero exit status 1.
make: *** [Makefile:12: all] Error 1
make: Leaving directory '/usr/src/pyodide-0.19.0/packages'
The command '/bin/sh -c PYODIDE_PACKAGES="kvxopt,dill,tqdm" make -C packages' returned a non-zero code: 2