smsaladi / codonw-slim Goto Github PK

To fix this:

  defaults.c

  codonw/codonwlib/src\defaults.c(353): error C2078: too many initializers

  codonw/codonwlib/src\defaults.c(310): error C2078: too many initializers

just delete any line in the red block.

codonw/codonwlib/src\codon_all.c(37): fatal error C1083: can't open file: “../include/codonW.h”: No such file or directory

i did not manage to install it and receive this error message:
Failed to build codonw-slim
Installing collected packages: codonw-slim
Running setup.py install for codonw-slim: started
Running setup.py install for codonw-slim: finished with status 'error'
Note: you may need to restart the kernel to use updated packages.
ERROR: Command errored out with exit status 1:
command: 'C:\Users\Radka\anaconda3\python.exe' -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\Users\Radka\AppData\Local\Temp\pip-install-0rehakhy\codonw-slim_014eff71e3ff4cc09a4bdc76f35409d1\setup.py'"'"'; file='"'"'C:\Users\Radka\AppData\Local\Temp\pip-install-0rehakhy\codonw-slim_014eff71e3ff4cc09a4bdc76f35409d1\setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(file);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' bdist_wheel -d 'C:\Users\Radka\AppData\Local\Temp\pip-wheel-vgqmuenp'
cwd: C:\Users\Radka\AppData\Local\Temp\pip-install-0rehakhy\codonw-slim_014eff71e3ff4cc09a4bdc76f35409d1
Complete output (10 lines):
running bdist_wheel
running build
running build_py
creating build
creating build\lib.win-amd64-3.8
creating build\lib.win-amd64-3.8\codonw
copying codonw_init_.py -> build\lib.win-amd64-3.8\codonw
running build_ext
building 'codonw.codonwlib' extension
error: Microsoft Visual C++ 14.0 or greater is required. Get it with "Microsoft C++ Build Tools": https://visualstudio.microsoft.com/visual-cpp-build-tools/

ERROR: Failed building wheel for codonw-slim
ERROR: Command errored out with exit status 1:
command: 'C:\Users\Radka\anaconda3\python.exe' -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\Users\Radka\AppData\Local\Temp\pip-install-0rehakhy\codonw-slim_014eff71e3ff4cc09a4bdc76f35409d1\setup.py'"'"'; file='"'"'C:\Users\Radka\AppData\Local\Temp\pip-install-0rehakhy\codonw-slim_014eff71e3ff4cc09a4bdc76f35409d1\setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(file);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' install --record 'C:\Users\Radka\AppData\Local\Temp\pip-record-8yehei8i\install-record.txt' --single-version-externally-managed --compile --install-headers 'C:\Users\Radka\anaconda3\Include\codonw-slim'
cwd: C:\Users\Radka\AppData\Local\Temp\pip-install-0rehakhy\codonw-slim_014eff71e3ff4cc09a4bdc76f35409d1
Complete output (10 lines):
running install
running build
running build_py
creating build
creating build\lib.win-amd64-3.8
creating build\lib.win-amd64-3.8\codonw
copying codonw_init_.py -> build\lib.win-amd64-3.8\codonw
running build_ext
building 'codonw.codonwlib' extension
error: Microsoft Visual C++ 14.0 or greater is required. Get it with "Microsoft C++ Build Tools": https://visualstudio.microsoft.com/visual-cpp-build-tools/
----------------------------------------
ERROR: Command errored out with exit status 1: 'C:\Users\Radka\anaconda3\python.exe' -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\Users\Radka\AppData\Local\Temp\pip-install-0rehakhy\codonw-slim_014eff71e3ff4cc09a4bdc76f35409d1\setup.py'"'"'; file='"'"'C:\Users\Radka\AppData\Local\Temp\pip-install-0rehakhy\codonw-slim_014eff71e3ff4cc09a4bdc76f35409d1\setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(file);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' install --record 'C:\Users\Radka\AppData\Local\Temp\pip-record-8yehei8i\install-record.txt' --single-version-externally-managed --compile --install-headers 'C:\Users\Radka\anaconda3\Include\codonw-slim' Check the logs for full command output.

could anybody help me to get it working??

codonw/codonwlib/codonw.pyx change line 88:

• self.seq = seq.encode()

• self.seq = bytes(seq)

import codonw
cseq = codonw.CodonSeq("ATGAATATGCTCATTGTCGGTAGAGTTGTTGCTAGTGTTGGGGGAAGCGGACTTCAAACG")
cseq.cai()
AttributeError: module 'codonw' has no attribute 'CodonSeq'