time function change (f2bc4821) · Commits · 钟慕尧 / deepchem

examples/Benchmark.py

+12 −12

Original line number	Diff line number	Diff line
		@@ -51,10 +51,10 @@ def benchmarkLoadingDatasets(base_dir_o, n_features = 1024, datasetName = 'all',
		print('Benchmark test on datasets: tox21')
		print('-------------------------------------')
		base_dir = os.path.join(base_dir_o, "tox21")
		time1 = time.clock()
		time1 = time.time()
		tasks_tox21,datasets_tox21,transformers_tox21 = load_tox21(base_dir,
		reload=reload)
		time2 = time.clock()
		time2 = time.time()
		with open('/home/zqwu/deepchem/examples/timing.csv','a') as f:
		f.write('Time for loading tox21,'+str(time2-time1)+'\n')

		@@ -63,7 +63,7 @@ def benchmarkLoadingDatasets(base_dir_o, n_features = 1024, datasetName = 'all',
		valid_dataset,
		tasks_tox21,transformers_tox21,
		n_features, model, verbosity)
		time3 = time.clock()
		time3 = time.time()
		with open('/home/zqwu/deepchem/examples/timing.csv','a') as f:
		f.write('Time for running tox21,'+model+','+str(time3-time2)+'\n')
		with open('/home/zqwu/deepchem/examples/results.csv','a') as f:
		@@ -82,9 +82,9 @@ def benchmarkLoadingDatasets(base_dir_o, n_features = 1024, datasetName = 'all',
		print('Benchmark test on datasets: muv')
		print('-------------------------------------')
		base_dir = os.path.join(base_dir_o, "muv")
		time1 = time.clock()
		time1 = time.time()
		tasks_muv,datasets_muv,transformers_muv = load_muv(base_dir,reload=reload)
		time2 = time.clock()
		time2 = time.time()
		with open('/home/zqwu/deepchem/examples/timing.csv','a') as f:
		f.write('Time for loading MUV,'+str(time2-time1)+'\n')

		@@ -95,7 +95,7 @@ def benchmarkLoadingDatasets(base_dir_o, n_features = 1024, datasetName = 'all',
		valid_dataset,
		tasks_muv, transformers_muv,
		n_features, model, verbosity)
		time3 = time.clock()
		time3 = time.time()
		with open('/home/zqwu/deepchem/examples/timing.csv','a') as f:
		f.write('Time for running MUV,'+model+','+str(time3-time2)+'\n')
		with open('/home/zqwu/deepchem/examples/results.csv','a') as f:
		@@ -119,9 +119,9 @@ def benchmarkLoadingDatasets(base_dir_o, n_features = 1024, datasetName = 'all',
		valid_dir = os.path.join(base_dir, "valid_dataset")
		test_dir = os.path.join(base_dir, "test_dataset")

		time1 = time.clock()
		time1 = time.time()
		tasks_nci,datasets_nci,transformers_nci = load_nci(base_dir, reload=reload)
		time2 = time.clock()
		time2 = time.time()
		with open('/home/zqwu/deepchem/examples/timing.csv','a') as f:
		f.write('Time for loading nci,'+str(time2-time1)+'\n')
		print("About to perform train/valid/test split.")
		@@ -133,7 +133,7 @@ def benchmarkLoadingDatasets(base_dir_o, n_features = 1024, datasetName = 'all',
		valid_dataset,
		tasks_nci,transformers_nci,
		n_features,model,verbosity)
		time3 = time.clock()
		time3 = time.time()
		with open('/home/zqwu/deepchem/examples/timing.csv','a') as f:
		f.write('Time for running nci,'+model+','+str(time3-time2)+'\n')
		with open('/home/zqwu/deepchem/examples/results.csv','a') as f:
		@@ -157,10 +157,10 @@ def benchmarkLoadingDatasets(base_dir_o, n_features = 1024, datasetName = 'all',
		valid_dir = os.path.join(base_dir, "valid_dataset")
		test_dir = os.path.join(base_dir, "test_dataset")

		time1 = time.clock()
		time1 = time.time()
		tasks_pcba,datasets_pcba,transformers_pcba = load_pcba(base_dir,
		reload=reload)
		time2 = time.clock()
		time2 = time.time()
		with open('/home/zqwu/deepchem/examples/timing.csv','a') as f:
		f.write('Time for loading pcba,'+str(time2-time1)+'\n')

		@@ -175,7 +175,7 @@ def benchmarkLoadingDatasets(base_dir_o, n_features = 1024, datasetName = 'all',
		valid_dataset,
		tasks_pcba,transformers_pcba,
		n_features, model, verbosity)
		time3 = time.clock()
		time3 = time.time()
		with open('/home/zqwu/deepchem/examples/timing.csv','a') as f:
		f.write('Time for running pcba,'+model+','+str(time3-time2)+'\n')
		with open('/home/zqwu/deepchem/examples/results.csv','a') as f:

examples/screenlog.0

+1 −1

Original line number	Diff line number	Diff line
		@@ -4152,4 +4152,4 @@ computed_metrics: [1.0, 1.0, 1.0, 1.0, 1.0, 1.0, 1.0, 1.0, 1.0, 1.0, 1.0, 1.0, 1
		srun: Force Terminated job 10444220
		srun: Job step aborted: Waiting up to 32 seconds for job step to finish.
		srun: error: Timed out waiting for job step to complete
		]0;zqwu@sherlock-ln01:~/deepchem/examples\[[1m[32mzqwu[m@sherlock-ln01 [1m[31mlogin_node[m ~/deepchem/examples]$ ky[K[K
		No newline at end of file
		]0;zqwu@sherlock-ln01:~/deepchem/examples\[[1m[32mzqwu[m@sherlock-ln01 [1m[31mlogin_node[m ~/deepchem/examples]$ ky[K[Ktimed out waiting for input: auto-logout

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