Pip failed error

[baidefeng]

When i run "conda env create -f environment.yaml -n phagcn", an "Pip failed" error occurred as below, i upgraded the pip but same error occurred, do you have ideas how to fix it? Thanks.

Channels:

• pytorch
• conda-forge
• bioconda
• defaults Platform: linux-64 Collecting package metadata (repodata.json): done Solving environment: done

Downloading and Extracting Packages:

Preparing transaction: done Verifying transaction: done Executing transaction: | By downloading and using the CUDA Toolkit conda packages, you accept the terms and conditions of the CUDA End User License Agreement (EULA): https://docs.nvidia.com/cuda/eula/index.html

done Installing pip dependencies: \ Ran pip subprocess with arguments: ['/data5/baidefeng/miniconda3/envs/phagcn/bin/python', '-m', 'pip', 'install', '-U', '-r', '/data5/baidefeng/virus6/temp/PhaGCN/condaenv.zyqxs9c3.requirements.txt', '--exists-action=b'] Pip subprocess output:

Pip subprocess error: ERROR: Exception: Traceback (most recent call last): File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/cli/base_command.py", line 180, in _main status = self.run(options, args) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/cli/req_command.py", line 205, in wrapper return func(self, options, args) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/commands/install.py", line 269, in run session = self.get_default_session(options) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/cli/req_command.py", line 77, in get_default_session self._session = self.enter_context(self._build_session(options)) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/cli/req_command.py", line 87, in _build_session session = PipSession( File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/network/session.py", line 275, in init self.headers["User-Agent"] = user_agent() File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/network/session.py", line 132, in user_agent linux_distribution = distro.linux_distribution() # type: ignore File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 125, in linux_distribution return _distro.linux_distribution(full_distribution_name) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 681, in linux_distribution self.version(), File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 741, in version self.lsb_release_attr('release'), File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 903, in lsb_release_attr return self._lsb_release_info.get(attribute, '') File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 556, in get ret = obj.dict[self._fname] = self._f(obj) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 1014, in _lsb_release_info stdout = subprocess.check_output(cmd, stderr=devnull) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/subprocess.py", line 415, in check_output return run(popenargs, stdout=PIPE, timeout=timeout, check=True, File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/subprocess.py", line 516, in run raise CalledProcessError(retcode, process.args, subprocess.CalledProcessError: Command '('lsb_release', '-a')' returned non-zero exit status 127. Traceback (most recent call last): File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/runpy.py", line 194, in _run_module_as_main return _run_code(code, main_globals, None, File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/runpy.py", line 87, in _run_code exec(code, run_globals) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/main.py", line 31, in sys.exit(_main()) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/cli/main.py", line 71, in main return command.main(cmd_args) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/cli/base_command.py", line 104, in main return self._main(args) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/cli/base_command.py", line 221, in _main self.handle_pip_version_check(options) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/cli/req_command.py", line 143, in handle_pip_version_check session = self._build_session( File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/cli/req_command.py", line 87, in _build_session session = PipSession( File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/network/session.py", line 275, in init self.headers["User-Agent"] = user_agent() File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_internal/network/session.py", line 132, in user_agent linux_distribution = distro.linux_distribution() # type: ignore File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 125, in linux_distribution return _distro.linux_distribution(full_distribution_name) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 681, in linux_distribution self.version(), File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 741, in version self.lsb_release_attr('release'), File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 903, in lsb_release_attr return self._lsb_release_info.get(attribute, '') File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 556, in get ret = obj.dict[self._fname] = self._f(obj) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/site-packages/pip/_vendor/distro.py", line 1014, in _lsb_release_info stdout = subprocess.check_output(cmd, stderr=devnull) File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/subprocess.py", line 415, in check_output return run(popenargs, stdout=PIPE, timeout=timeout, check=True, File "/data5/baidefeng/miniconda3/envs/phagcn/lib/python3.8/subprocess.py", line 516, in run raise CalledProcessError(retcode, process.args, subprocess.CalledProcessError: Command '('lsb_release', '-a')' returned non-zero exit status 127.

failed

CondaEnvException: Pip failed

[KennthShang]

Hi there,

Please note that:

Best, Jiayu