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I tried to print the cmd in algo.py,and copy it to terminal ,also get errors python /mnt/spleenreg/dints_0/scripts/search.py run --config_file='/mnt/spleenreg/dints_0/configs/network.yaml','/mnt/spleenreg/dints_0/configs/transforms_validate.yaml','/mnt/spleenreg/dints_0/configs/transforms_infer.yaml','/mnt/spleenreg/dints_0/configs/network_search.yaml','/mnt/spleenreg/dints_0/configs/hyper_parameters.yaml','/mnt/spleenreg/dints_0/configs/transforms_train.yaml','/mnt/spleenreg/dints_0/configs/hyper_parameters_search.yaml' --searching#num_iterations=8 --searching#num_iterations_per_validation=4 --searching#num_images_per_batch=2 --searching#num_epochs=2 --searching#num_warmup_iterations=4 0 errors in terminal:[Errno 2] No such file or directory: '/mnt/spleenreg/dints_0/configs/network.yaml,/mnt/spleenreg/dints_0/configs/transforms_validate.yaml,/mnt/spleenreg/dints_0/configs/transforms_infer.yaml,/mnt/spleenreg/dints_0/configs/network_search.yaml,/mnt/spleenreg/dints_0/configs/hyper_parameters.yaml,/mnt/spleenreg/dints_0/configs/transforms_train.yaml,/mnt/spleenreg/dints_0/configs/hyper_parameters_search.yaml' |
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Hi @lg2578, could you please try this command and check whether you are under the correct path. You can find some guidance under "...../dints_0/docs)" Hope it can help you, thanks! |
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your code works in the .../dints_0 directory. |
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I'm try auto3dseg in my machine. and get the following error with runner.run():
2023-01-30 11:29:25,353 - INFO - Skipping data analysis...
2023-01-30 11:29:25,355 - INFO - Skipping algorithm generation...
2023-01-30 11:29:25,362 - INFO - Launching: python /mnt/spleenreg/dints_0/scripts/search.py run --config_file='/mnt/spleenreg/dints_0/configs/network.yaml','/mnt/spleenreg/dints_0/configs/transforms_validate.yaml','/mnt/spleenreg/dints_0/configs/transforms_infer.yaml','/mnt/spleenreg/dints_0/configs/network_search.yaml','/mnt/spleenreg/dints_0/configs/hyper_parameters.yaml','/mnt/spleenreg/dints_0/configs/transforms_train.yaml','/mnt/spleenreg/dints_0/configs/hyper_parameters_search.yaml' --searching#num_iterations=8 --searching#num_iterations_per_validation=4 --searching#num_images_per_batch=2 --searching#num_epochs=2 --searching#num_warmup_iterations=4
FileNotFoundError Traceback (most recent call last)
/tmp/ipykernel_106/3926302587.py in <cell line: 1>()
----> 1 runner.run()
~/miniconda3/envs/myconda/lib/python3.8/site-packages/monai/apps/auto3dseg/auto_runner.py in run(self)
681
682 if not self.hpo:
--> 683 self._train_algo_in_sequence(history)
684 else:
685 self._train_algo_in_nni(history)
~/miniconda3/envs/myconda/lib/python3.8/site-packages/monai/apps/auto3dseg/auto_runner.py in _train_algo_in_sequence(self, history)
553 for task in history:
554 for _, algo in task.items():
--> 555 algo.train(self.train_params)
556 acc = algo.get_score()
557 algo_to_pickle(algo, template_path=algo.template_path, best_metrics=acc)
/mnt/spleenreg/algorithm_templates/dints/scripts/algo.py in train(self, train_params)
396 cmd, devices_info = self._create_cmd(dints_search_params)
397 cmd_search = cmd.replace("train.py", "search.py")
--> 398 self._run_cmd(cmd_search, devices_info)
399
400 # training
~/miniconda3/envs/myconda/lib/python3.8/site-packages/monai/apps/auto3dseg/bundle_gen.py in _run_cmd(self, cmd, devices_info)
186 if devices_info:
187 ps_environ["CUDA_VISIBLE_DEVICES"] = devices_info
--> 188 normal_out = subprocess.run(cmd.split(), env=ps_environ, check=True)
189
190 return normal_out
~/miniconda3/envs/myconda/lib/python3.8/subprocess.py in run(input, capture_output, timeout, check, *popenargs, **kwargs)
491 kwargs['stderr'] = PIPE
492
--> 493 with Popen(*popenargs, **kwargs) as process:
494 try:
495 stdout, stderr = process.communicate(input, timeout=timeout)
~/miniconda3/envs/myconda/lib/python3.8/subprocess.py in init(self, args, bufsize, executable, stdin, stdout, stderr, preexec_fn, close_fds, shell, cwd, env, universal_newlines, startupinfo, creationflags, restore_signals, start_new_session, pass_fds, encoding, errors, text)
856 encoding=encoding, errors=errors)
857
--> 858 self._execute_child(args, executable, preexec_fn, close_fds,
859 pass_fds, cwd, env,
860 startupinfo, creationflags, shell,
~/miniconda3/envs/myconda/lib/python3.8/subprocess.py in _execute_child(self, args, executable, preexec_fn, close_fds, pass_fds, cwd, env, startupinfo, creationflags, shell, p2cread, p2cwrite, c2pread, c2pwrite, errread, errwrite, restore_signals, start_new_session)
1702 if errno_num != 0:
1703 err_msg = os.strerror(errno_num)
-> 1704 raise child_exception_type(errno_num, err_msg, err_filename)
1705 raise child_exception_type(err_msg)
1706
FileNotFoundError: [Errno 2] No such file or directory: 'python'
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