merge python scripts
This commit is contained in:
fixminer
Executable
+509
@@ -0,0 +1,509 @@
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import bugzoo
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from bugzoo import server, Container
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import csv
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import os
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from common.commons import *
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DATA_PATH = os.environ["DATA_PATH"]
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def readTestSuite(testPath):
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regex = r"([p|n0-9]+)\)"
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with open(testPath,mode='r') as testFile:
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test_str = testFile.read()
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matches = re.finditer(regex, test_str, re.MULTILINE)
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testList = []
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for matchNum, match in enumerate(matches, start=1):
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for groupNum in range(0, len(match.groups())):
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groupNum = groupNum + 1
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testList.append(match.group(groupNum))
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return testList
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def myvalidateCore(t):
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bugName, port = t
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container = None
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with bugzoo.server.ephemeral(port=port, verbose=False, timeout_connection=30000) as client:
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try:
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bug = client.bugs[bugName]
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if client.bugs.is_installed(bug):
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pass
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else:
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client.bugs.build(bug)
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fix = 'failure'
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output = ''
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output += 'bugName:' + bugName + ', '
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container = client.containers.provision(bug)
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# output += 'First_test:'
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preId, postId = bugName.split(':')[-1].split('-')[-2:]
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originalBugs = get_filepaths(join(DATA_PATH, 'manybugs', bugName, 'diffs'), preId)
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# for ob in originalBugs:
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# filepath = ob.split('diffs')[-1]
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# cmd = 'cp /experiment/diffs' + filepath + ' src' + filepath.replace('-' + preId, '')
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# client.containers.exec(container=container, command=cmd, context='/experiment/')
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validTests = readTestSuite(join(DATA_PATH, 'manybugs', bugName, 'test.sh'))
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output += 'total ' + str(len(bug.tests._tests)) + ' newtotal ' + str(len(validTests))
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# client.containers.build(container)
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# pre_failure_cases, pre_failure, total, pre_test_outcomes = test_all(bug, container, client,validTests)
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# if pre_failure == 0:
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# logging.error(bugName + ' no failed test initially')
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# return ''
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# output += '@fail:' + ','.join(pre_failure) + '@total:' + str(total) + ', ' + '@newtotal:' + str(len(validTests)) + ', '
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#
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# fixBugs = get_filepaths(join(DATA_PATH, 'manybugs', bugName, 'diffs'), postId)
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# for ob in fixBugs:
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# filepath = ob.split('diffs')[-1]
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# cmd = 'cp /experiment/diffs' + filepath + ' src' + filepath.replace('-' + postId, '')
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# client.containers.exec(container=container, command=cmd, context='/experiment/')
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# client.containers.build(container)
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# diff_files = get_diff(bug.name, client, container)
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# patch_result = patch_application(client, container, diff_files)
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# if not patch_result:
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# print("@{}@".format(patch_result))
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# continue
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# print("@{}@".format(patch_result),end=' ')
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#
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#
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# print("Second_test:",end=' ')
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# post_test_outcomes = {}
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# post_failure_cases, post_failure, total, post_test_outcomes = test_all(bug, container, client,validTests)
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# output += ','.join(post_failure) + ' '
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# if len(post_failure) == 0:
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# # times += 1
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# fix = 'success'
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# # print("fix {} by {}".format(bugName, patch_name))
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# output += 'fix {} '.format(bugName)
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# patch_names = os.listdir(join(DATA_PATH,'manybugs',bugName,'patched'))
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# patch_names = [i for i in patch_names if not i.endswith('.DS_Store')]
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# if len(originalBugs) != 1:
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# members = []
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#
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# for member in set([i.split('-')[0] for i in patch_names]):
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# members.append([i for i in patch_names if i.startswith(member)])
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#
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# patch_names= list(itertools.product(*members))
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# patch_names
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# times = 0
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# for patch_name in patch_names:
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# if isinstance(patch_name, tuple):
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# for i in patch_name:
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# copyPatch(bugName, client, container, originalBugs, i, preId)
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# else:
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# copyPatch(bugName, client, container, originalBugs, patch_name, preId)
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#
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# patch_result = client.containers.build(container)
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# if not patch_result.successful:
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# output += '@False@F '
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# continue
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# output += '@True@'
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#
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# post_test_outcomes = {}
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# post_failure_cases, post_failure, total, post_test_outcomes = test_all(bug, container, client,validTests)
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#
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# output += ','.join(post_failure) + ' '
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# if len(post_failure) == 0:
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# # times += 1
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# fix = 'success'
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# # print("fix {} by {}".format(bugName, patch_name))
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# output += 'fix {} '.format(bugName)
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#
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# output += 'times:{}, '.format(times) + fix
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print(output)
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return output
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except Exception as e:
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logging.error(e)
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# continue
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finally:
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# ''
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cmd = 'docker stop {}'.format(container.id)
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out, e = shellGitCheckout(cmd)
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# docker stop $(docker ps -q)
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def validateCore(t):
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bugName, port = t
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container = None
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with bugzoo.server.ephemeral(port=port, verbose=False, timeout_connection=30000) as client:
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try:
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bug = client.bugs[bugName]
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if client.bugs.is_installed(bug):
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pass
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else:
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client.bugs.build(bug)
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fix = 'failure'
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output = ''
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output += 'bugName:' + bugName + ', '
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container = client.containers.provision(bug)
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output += 'First_test:'
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preId, postId = bugName.split(':')[-1].split('-')[-2:]
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failing = join(DATA_PATH, 'manybugs', bugName, 'failing.tests.txt')
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passing = join(DATA_PATH, 'manybugs', bugName, 'passing.tests.txt')
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if not (isfile(failing)):
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return
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cmd = 'docker cp ' +failing+ ' '+container.id +':/experiment/failing.tests.txt '
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o,e = shellGitCheckout(cmd)
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cmd = 'sudo chown $(whoami):$(whoami) "{}"'
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cmd = cmd.format('failing.tests.txt')
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o = client.containers.exec(container=container, command=cmd, context='/experiment/')
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cmd = 'docker cp ' +passing+ ' '+container.id +':/experiment/passing.tests.txt '
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o,e = shellGitCheckout(cmd)
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cmd = 'sudo chown $(whoami):$(whoami) "{}"'
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cmd = cmd.format('passing.tests.txt')
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o = client.containers.exec(container=container, command=cmd, context='/experiment/')
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originalBugs = get_filepaths(join(DATA_PATH, 'manybugs', bugName, 'diffs'), preId)
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for ob in originalBugs:
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filepath = ob.split('diffs')[-1]
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cmd = 'cp diffs' + filepath + ' src' + filepath.replace('-' + preId, '')
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client.containers.exec(container=container, command=cmd, context='/experiment/')
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validTests = readTestSuite(join(DATA_PATH, 'manybugs', bugName, 'test.sh'))
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client.containers.build(container)
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pre_failure_cases, pre_failure, total, pre_test_outcomes = test_all(bug, container, client,validTests)
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if pre_failure == 0:
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logging.error(bugName + ' no failed test initially')
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return ''
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output += '@fail:' + ','.join(pre_failure) + '@total:' + str(total) + ', ' + '@newtotal:' + str(len(validTests)) + ', '
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fixBugs = get_filepaths(join(DATA_PATH, 'manybugs', bugName, 'diffs'), postId)
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for ob in fixBugs:
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filepath = ob.split('diffs')[-1]
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cmd = 'cp diffs' + filepath + ' src' + filepath.replace('-' + postId, '')
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client.containers.exec(container=container, command=cmd, context='/experiment/')
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client.containers.build(container)
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# diff_files = get_diff(bug.name, client, container)
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# patch_result = patch_application(client, container, diff_files)
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# if not patch_result:
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# print("@{}@".format(patch_result))
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# continue
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# print("@{}@".format(patch_result),end=' ')
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#
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#
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# print("Second_test:",end=' ')
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# post_test_outcomes = {}
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post_failure_cases, post_failure, total, post_test_outcomes = test_all(bug, container, client,validTests)
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output += ','.join(post_failure) + ' '
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if len(post_failure) == 0:
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# times += 1
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fix = 'success'
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# print("fix {} by {}".format(bugName, patch_name))
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output += 'fix {} '.format(bugName)
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# patch_names = os.listdir(join(DATA_PATH,'manybugs',bugName,'patched'))
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# patch_names = [i for i in patch_names if not i.endswith('.DS_Store')]
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# if len(originalBugs) != 1:
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# members = []
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#
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# for member in set([i.split('-')[0] for i in patch_names]):
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# members.append([i for i in patch_names if i.startswith(member)])
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#
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# patch_names= list(itertools.product(*members))
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# patch_names
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# times = 0
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# for patch_name in patch_names:
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# if isinstance(patch_name, tuple):
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# for i in patch_name:
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# copyPatch(bugName, client, container, originalBugs, i, preId)
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# else:
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# copyPatch(bugName, client, container, originalBugs, patch_name, preId)
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#
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# patch_result = client.containers.build(container)
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# if not patch_result.successful:
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# output += '@False@F '
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# continue
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# output += '@True@'
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#
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# post_test_outcomes = {}
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# post_failure_cases, post_failure, total, post_test_outcomes = test_all(bug, container, client)
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#
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# output += str(post_failure) + ' '
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# if post_failure == 0:
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# times += 1
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# fix = 'success'
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# output += 'fix {} by {} '.format(bugName, patch_name)
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#
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# output += 'times:{}, '.format(times) + fix
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print(output)
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return output
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except Exception as e:
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logging.error(e)
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# continue
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finally:
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# ''
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cmd = 'docker stop {}'.format(container.id)
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out, e = shellGitCheckout(cmd)
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# docker stop $(docker ps -q)
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def copyPatch(bugName, client, container, originalBugs, patch_name, preId):
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originalBugName = patch_name.split('-' + preId)[0]
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originalBugPaths = [i.split('diffs')[-1].split(originalBugName)[0] for i in originalBugs if
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i.split('/')[-1].startswith(originalBugName)]
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if len(originalBugPaths) == 1:
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originalBugPath = originalBugPaths[0]
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else:
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logging.error('too many paths')
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cmd = 'docker cp ' + join(DATA_PATH, 'manybugs', bugName, 'patched',
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patch_name) + ' ' + container.id + ':/experiment/src' + originalBugPath + originalBugName
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o, e = shellGitCheckout(cmd)
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cmd = 'sudo chown $(whoami):$(whoami) "{}"'
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cmd = cmd.format('src' + originalBugPath + originalBugName)
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o = client.containers.exec(container=container, command=cmd, context='/experiment/')
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cmd = 'rm -rf "{}"'
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cmd = cmd.format('src' + originalBugPath + originalBugName.replace('.c','.o'))
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o = client.containers.exec(container=container, command=cmd, context='/experiment/')
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def patch_validate():
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logger = logging.getLogger()
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for k,v in logger.manager.loggerDict.items():
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if(k.startswith('bugzoo')):
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if isinstance(v,logging.Logger):
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v.setLevel(logging.ERROR)
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buglist = listdir(join(DATA_PATH,'manybugs'))
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# for i in range(0,len(bugList)):
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bugList = []
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port = 6000
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for b in buglist:
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if b== '.DS_Store':
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continue
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t = b, port
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if (b.startswith('manybugs:php:')):
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bugList.append(t)
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if port == 6300:
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port = 6000
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port += 1
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# bugList = [('manybugs:python:69783-69784', 6000)]
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# bugList = [('manybugs:python:69709-69710', 6027)]
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# bugList = [('manybugs:python:69223-69224', 6027)]
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# bugList = [('manybugs:php:2012-02-25-c1322d2505-cfa9c90b20', 6027)]
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# parallelRun(fixTests,bugList)
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# parallelRun(findTests,bugList,max_workers=1)
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results = parallelRunMerge(validateCore, bugList)
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# #
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with open(join(DATA_PATH, 'mayBugsValidateNew'), 'w',
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encoding='utf-8') as writeFile:
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# if levelPatch == 0:
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writeFile.write('\n'.join(results))
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# print(results)
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def findTests(t):
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bugName, port = t
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preId, postId = bugName.split(':')[-1].split('-')[-2:]
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preTests= join(DATA_PATH, 'manybugs', bugName,'test-' + preId + '.out')
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postTests = join(DATA_PATH, 'manybugs', bugName,'test-' + postId + '.out')
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with open(preTests,mode='r') as preTestFile:
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preTestResults = preTestFile.read()
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with open(postTests,mode='r') as postTestFile:
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postTestResults = postTestFile.read()
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preTestResults
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preFails = findAllTests(r"FAIL .*\[(.*)\]", preTestResults)
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prePasses = findAllTests(r"PASS .*\[(.*)\]", preTestResults)
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postFails = findAllTests(r"FAIL .*\[(.*)\]", postTestResults)
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postPasses = findAllTests(r"PASS .*\[(.*)\]", postTestResults)
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existingTests = get_filepaths(join(DATA_PATH, 'manybugs', bugName, 'src'), '.phpt')
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existingTests = [i.split(join(DATA_PATH, 'manybugs', bugName, 'src/'))[-1] for i in existingTests]
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postPasses
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if( set(preFails).difference(set(postFails)) == set(postPasses).difference(set(prePasses))):
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failingList = list(set(preFails).difference(set(postFails)))
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passingList = list(set(postPasses).intersection(set(prePasses)))
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failingList = [i for i in failingList if i in existingTests]
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passingList = [i for i in passingList if i in existingTests]
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if( len(failingList) > 0 and len(passingList)> 0):
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with open(join(DATA_PATH, 'manybugs', bugName, 'failing.tests.txt'),mode='w') as failFile:
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failFile.write('\n'.join(failingList))
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with open(join(DATA_PATH, 'manybugs', bugName, 'passing.tests.txt'),mode='w') as passFile:
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passFile.write('\n'.join(passingList))
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else:
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print('something wrong ' + bugName)
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else:
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print('something wrong ' + bugName)
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def findAllTests(regex,test_str):
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matches = re.finditer(regex, test_str, re.MULTILINE)
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res = []
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for matchNum, match in enumerate(matches, start=1):
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# print("Match {matchNum} was found at {start}-{end}: {match}".format(matchNum=matchNum, start=match.start(),
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# end=match.end(), match=match.group()))
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for groupNum in range(0, len(match.groups())):
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groupNum = groupNum + 1
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res.append(match.group(groupNum))
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# print("Group {groupNum} found at {start}-{end}: {group}".format(groupNum=groupNum,
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# start=match.start(groupNum),
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# end=match.end(groupNum),
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# group=match.group(groupNum)))
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return res
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def patch_validate_mine():
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logger = logging.getLogger()
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for k,v in logger.manager.loggerDict.items():
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if(k.startswith('bugzoo')):
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if isinstance(v,logging.Logger):
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v.setLevel(logging.ERROR)
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buglist = listdir(join(DATA_PATH,'manybugs'))
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# for i in range(0,len(bugList)):
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bugList = []
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port = 6000
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for b in buglist:
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if b== '.DS_Store':
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continue
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t = b, port
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bugList.append(t)
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if port == 6300:
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port = 6000
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port += 1
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# bugList = [('manybugs:python:69783-69784', 6000)]
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# bugList = [('manybugs:python:69709-69710', 6027)]
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# bugList = [('manybugs:python:69223-69224', 6027)]
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results = parallelRunMerge(myvalidateCore, bugList,max_workers=12)
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with open(join(DATA_PATH, 'mayBugsPatchResults'), 'w',
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encoding='utf-8') as writeFile:
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# if levelPatch == 0:
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writeFile.write('\n'.join(results))
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print(results)
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from bugzoo import Patch, Client
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def test_all(bug, container, client,validTests):
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test_outcomes = {} # type: Dict[TestCase, TestOutcome]
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failure_cases = []
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failure = []
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total = len(bug.tests._tests)
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for test in bug.tests:
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# if test.name in validTests:
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test_outcomes[test] = client.containers.test(container, test)
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# if test.expected_outcome != test_outcomes[test].passed:
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if test_outcomes[test].passed != True:
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failure.append(test.name)
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failure_cases.append(test.command)
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break
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return failure_cases, failure, total, test_outcomes
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||||
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||||
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def fixTests(t):
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bugName, port = t
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container = None
|
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with bugzoo.server.ephemeral(port=port, verbose=False, timeout_connection=30000) as client:
|
||||
try:
|
||||
|
||||
bug = client.bugs[bugName]
|
||||
if client.bugs.is_installed(bug):
|
||||
pass
|
||||
else:
|
||||
client.bugs.build(bug)
|
||||
|
||||
container = client.containers.provision(bug)
|
||||
preId, postId = bugName.split(':')[-1].split('-')[-2:]
|
||||
|
||||
cmd = 'make distclean'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd = 'git reset --hard && git clean -fd'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd = 'git checkout "{}"'.format(preId)
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
cmd ='cat ../libxml.patch | patch -p0'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd = 'find . -name tests -type d -exec git checkout {} {{}} \;'.format(postId)
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd ='./buildconf'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
if preId in ['74343ca506', '8138f7de40']:
|
||||
cmd ='./configure --disable-phar "CFLAGS=-fprofile-arcs -ftest-coverage" "CXXFLAGS=-fprofile-arcs -ftest-coverage" "LDFLAGS=-lgcov"'
|
||||
else:
|
||||
cmd = './configure "CFLAGS=-fprofile-arcs -ftest-coverage" "CXXFLAGS=-fprofile-arcs -ftest-coverage" "LDFLAGS=-lgcov"'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd = 'make -j{}'.format(4)
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd = 'no | make test -s > ../test-'+preId+'.out'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
###
|
||||
|
||||
cmd = 'make distclean'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd = 'git reset --hard && git clean -fd'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd = 'git checkout "{}"'.format(postId)
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
cmd = 'cat ../libxml.patch | patch -p0'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd = './buildconf'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
if preId in ['74343ca506', '8138f7de40']:
|
||||
cmd = './configure --disable-phar "CFLAGS=-fprofile-arcs -ftest-coverage" "CXXFLAGS=-fprofile-arcs -ftest-coverage" "LDFLAGS=-lgcov"'
|
||||
else:
|
||||
cmd = './configure "CFLAGS=-fprofile-arcs -ftest-coverage" "CXXFLAGS=-fprofile-arcs -ftest-coverage" "LDFLAGS=-lgcov"'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd = 'make -j{}'.format(4)
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd = 'no | make test -s > ../test-' + postId + '.out'
|
||||
o = client.containers.exec(container=container, command=cmd, context='/experiment/src')
|
||||
|
||||
cmd = 'docker cp ' + container.id +':/experiment/test-'+preId+'.out ' + join(DATA_PATH,'manybugs',bugName,'test-'+preId+'.out')
|
||||
o,e = shellGitCheckout(cmd)
|
||||
print(o, e)
|
||||
cmd = 'docker cp ' + container.id +':/experiment/test-'+postId+'.out ' +join(DATA_PATH,'manybugs',bugName,'test-'+postId+'.out')
|
||||
o,e = shellGitCheckout(cmd)
|
||||
|
||||
print(o,e)
|
||||
|
||||
|
||||
|
||||
|
||||
except Exception as e:
|
||||
logging.error(e)
|
||||
# continue
|
||||
finally:
|
||||
# ''
|
||||
cmd = 'docker stop {}'.format(container.id)
|
||||
out, e = shellGitCheckout(cmd)
|
||||
# docker stop $(docker ps -q)
|
||||
|
||||
if __name__ == "__main__":
|
||||
patch_validate()
|
||||
Reference in New Issue
Block a user