diitaz93 / polypharm_predict Goto Github PK

Input data loaded

Initial BDM calculated for nodes

Traceback (most recent call last):
File "/root/DDI-env/polypharm_predict/data/./ppi_bdm.py", line 50, in
nodebdm_ppi = ppi_nodeper.run()
File "/root/DDI-env/polypharm_predict/data/algorithms.py", line 582, in run
output = np.array(Parallel(n_jobs=self.jobs)(delayed(self._method)
File "/usr/local/lib/python3.10/site-packages/joblib/parallel.py", line 1056, in call
self.retrieve()
File "/usr/local/lib/python3.10/site-packages/joblib/parallel.py", line 935, in retrieve
self._output.extend(job.get(timeout=self.timeout))
File "/usr/local/lib/python3.10/site-packages/joblib/_parallel_backends.py", line 542, in wrap_future_result
return future.result(timeout=timeout)
File "/usr/local/lib/python3.10/concurrent/futures/_base.py", line 446, in result
return self.__get_result()
File "/usr/local/lib/python3.10/concurrent/futures/_base.py", line 391, in __get_result
raise self._exception
joblib.externals.loky.process_executor.TerminatedWorkerError: A worker process managed by the executor was unexpectedly terminated. This could be caused by a segmentation fault while calling the function or by an excessive memory usage causing the Operating System to kill the worker.

The exit codes of the workers are {SIGKILL(-9)}

Facing error will building singularity "singularity build --fakeroot GPU.sif decagon-gpu.def"

ERROR:

+ pip2 install --upgrade pip
Collecting pip
  Downloading https://files.pythonhosted.org/packages/cd/b6/cf07132d631444dd7ce0ed199f2327eb34e2418f1675145e5b10e1ee65cd/pip-22.2.tar.gz (2.0MB)
    100% |################################| 2.0MB 804kB/s 
    Complete output from command python setup.py egg_info:
    Traceback (most recent call last):
      File "<string>", line 1, in <module>
      File "/tmp/pip-build-JVl8bM/pip/setup.py", line 7
        def read(rel_path: str) -> str:
                         ^
    SyntaxError: invalid syntax
    
    ----------------------------------------
Command "python setup.py egg_info" failed with error code 1 in /tmp/pip-build-JVl8bM/pip/
You are using pip version 8.1.1, however version 22.2 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
FATAL:   failed to execute %post proc: exit status 1
FATAL:   While performing build: while running engine: while running /usr/local/libexec/singularity/bin/starter: exit status 255

I have tried different method but it didn't help.
methods tried: https://stackoverflow.com/questions/69710274/pip-install-upgrade-fails-with-syntaxerror