changes
This commit is contained in:
anil
+504
-10
@@ -33,7 +33,7 @@ if __name__ == '__main__':
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# subject = 'ALL'
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# rootType = 'if'
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# job = 'patterns'
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print(job)
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@@ -99,21 +99,21 @@ if __name__ == '__main__':
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elif job =='indexClusters':
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from sprinferIndex import runSpinfer
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runSpinfer()
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from sprinferIndex import test
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test()
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#
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# from sprinferIndex import test
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# test()
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from sprinferIndex import divideCoccis
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divideCoccis()
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from sprinferIndex import removeDuplicates
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removeDuplicates()
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elif job == 'evalManyBugs':
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from patchManyBugs import patchCore
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patchCore()
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# from patchManyBugs import patched
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# patched()
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from patchManyBugs import exportSosPatches
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exportSosPatches()
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# from patchManyBugs import patchCore
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# patchCore()
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## from patchManyBugs import patched
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## patched()
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# from patchManyBugs import exportSosPatches
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# exportSosPatches()
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from validate_manybugs import validate
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validate()
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@@ -178,8 +178,502 @@ if __name__ == '__main__':
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elif job == 'patterns':
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from stats import exportAbstractPatterns
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exportAbstractPatterns()
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elif job == 'travis':
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if isfile(join(DATA_PATH,'repoList')):
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repoList = load_zipped_pickle(join(DATA_PATH,'repoList'))
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else:
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jobsPath = '/Users/anil.koyuncu/Downloads/jobs/'
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files = listdir(jobsPath)
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def findRepos(file):
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a = pd.read_json(join(jobsPath, file))
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repoList = a[a.config.apply(lambda x: x['language'] == 'c')].repository_slug.unique().tolist()
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return repoList
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repos = parallelRunMerge(findRepos,files)
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repos
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repoList = list(itertools.chain.from_iterable(repos))
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repoList = list(set(repoList))
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save_zipped_pickle(repoList,join(DATA_PATH,'repoList'))
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repoList
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if not isfile(join(DATA_PATH,'repoDF')):
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import requests
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results = []
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start = 1
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prevDF = load_zipped_pickle( join(DATA_PATH, 'repoDF'))
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prevMap = prevDF.set_index('repo').to_dict()['commitCount']
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repoDF = pd.DataFrame(columns=['repo', 'commitCount'])
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for idx, repo in enumerate(prevDF.repo.values.tolist()):
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# commit count
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import time
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# print("Printed immediately.")
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# time.sleep(0.1)
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# resp = requests.get('https://github.com/'+repo)
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# if resp.status_code != 200:
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# continue
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# repoDF.loc[idx] = [repo, '',False]
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# else:
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if repo in prevMap:
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count = prevMap[repo]
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if count == '':
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resp = requests.get('https://github.com/' + repo)
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print(repo)
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repo = resp.url.split('https://github.com/')[-1]
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print(repo)
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cmd = 'curl -H "Authorization: token 39af4590fec0181ee47c17104d46aa179560b1d9" -I -k "https://api.github.com/repos/'+repo+'/commits?per_page=1"'+ " | sed -n '/^[Ll]ink:/ s/.*\"next\".*page=\([0-9]*\).*\"last\".*/\\1/p'"
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o,e=shellGitCheckout(cmd)
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print(e)
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print(o)
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count = o.strip()
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repoDF.loc[idx] = [repo, count]
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# import bs4 as bs
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#
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# from urllib.request import urlopen
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# from urllib import error
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# import urllib
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#
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# import socket
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#
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# timeout = 30
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# socket.setdefaulttimeout(timeout)
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#
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# import logging
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#
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# hdr = {
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# 'User-Agent': 'Mozilla/5.0 (X11; Linux x86_64) AppleWebKit/537.11 (KHTML, like Gecko) Chrome/23.0.1271.64 Safari/537.11',
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# 'Accept': 'text/html,application/xhtml+xml,application/xml;q=0.9,*/*;q=0.8',
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# 'Accept-Charset': 'ISO-8859-1,utf-8;q=0.7,*;q=0.3',
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# 'Accept-Encoding': 'none',
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# 'Accept-Language': 'en-US,en;q=0.8',
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# 'Connection': 'keep-alive'}
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#
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# req = urllib.request.Request('https://github.com/'+repo, headers=hdr)
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#
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# response = urlopen(req)
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# the_page = response.read()
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#
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# soup = bs.BeautifulSoup(the_page, "html.parser")
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# meta = soup.find('meta', {'name': 'octolytics-dimension-repository_is_fork'})
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#
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# repoDF.loc[idx] = [repo,count,meta['content']]
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repoDF
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def getGitHubApi(r):
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headers = {'Authorization': 'token %s' % '39af4590fec0181ee47c17104d46aa179560b1d9'}
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resp = requests.get('https://api.github.com/repos/' + r, headers=headers)
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if resp.status_code != 200:
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print(resp.status_code)
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return resp.json()
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repoDF['info']= repoDF.repo.apply(lambda x:getGitHubApi(x))
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else:
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repoDF= load_zipped_pickle(join(DATA_PATH, 'repoDF'))
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repoDF['isFork'] = repoDF['info'].apply(lambda x: x['fork'])
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nonForks = repoDF[repoDF['isFork'] == False]
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nonForks['forks'] = nonForks['info'].apply(lambda x: x['forks'])
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nonForks['open_issues'] = nonForks['info'].apply(lambda x: x['open_issues'])
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nonForks['watchers'] = nonForks['info'].apply(lambda x: x['watchers'])
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nonForks['subscribers_count'] = nonForks['info'].apply(lambda x: x['subscribers_count'])
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nonForks.commitCount = nonForks.commitCount.apply(lambda x:int(x) if x!='' else 0)
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nonForks.sort_values(by='commitCount', ascending=False, inplace=True)
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nonForks['language'] = nonForks['info'].apply(lambda x: x['language'])
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nonForks[nonForks['language'] == 'C']
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# save_zipped_pickle(repoDF, join(DATA_PATH, 'repoDF'))
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resp = requests.get(
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'https://api.travis-ci.org/repos/php/php-src/builds?after_number=' + str(start * 25))
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# if resp.status_code != 200:
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# # This means something went wrong.
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# raise Exception('GET /tasks/ {}'.format(resp.status_code))
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# results.append(resp.json())
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# start += 1
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elif job == 'test':
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if isfile(join(DATA_PATH, 'buildDFprocessed.pickle')):
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res= load_zipped_pickle(join(DATA_PATH, 'buildDFprocessed.pickle'))
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else:
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if isfile(join(DATA_PATH, 'buildDF.pickle')):
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buildDF = load_zipped_pickle(join(DATA_PATH, 'buildDF.pickle'))
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else:
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import requests
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results = []
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start = 1
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while( start* 25 < 9250):
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resp = requests.get('https://api.travis-ci.org/repos/kamailio/kamailio/builds?after_number='+str(start*25))
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if resp.status_code != 200:
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# This means something went wrong.
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raise Exception('GET /tasks/ {}'.format(resp.status_code))
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results.append(resp.json())
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start+=1
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buildList = list(itertools.chain.from_iterable(results))
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buildDF = pd.DataFrame(buildList)
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save_zipped_pickle(buildDF, join(DATA_PATH, 'buildDF.pickle'))
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master = buildDF[buildDF.branch == 'master']
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master = master[master.result == 1]
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failingBuilds = master.number.values.tolist()
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master['inducing'] = master.number.apply(lambda x: str(int(x) - 1) not in failingBuilds)
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bugInducingBuilds = master[master.inducing == True]
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bugInducingBuilds['number'] = bugInducingBuilds.number.apply(lambda x: str(x).zfill(5))
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bugInducingBuilds.sort_values(by='number', inplace=True)
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pushes = bugInducingBuilds[bugInducingBuilds.event_type == 'push']
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DATASET_PATH = os.environ["REPO_PATH"]
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def checkStat(x, dsName):
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# repo = '/Users/anil.koyuncu/projects/linux'
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cmd = 'git -C ' + join(DATASET_PATH, dsName) + ' show ' + x + " --pretty=\"format:\" --stat -M100%"
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out, err = shellGitCheckout(cmd, enc='latin1')
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log = {}
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lines = out.strip().split('\n')
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for line in lines[:-1]:
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fname,ftype= line.split('|')
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fname = fname.strip()
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ftype= ftype.strip()
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if not (ftype == '0' or ftype == 'Bin'):
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ftypes = set(ftype.split(' ')[1])
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if len(ftypes) == 2:
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ftype = 'M'
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else:
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if list(ftypes)[0] == '+':
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ftype = 'A'
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else:
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ftype = 'D'
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log[fname] = ftype
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log
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df = pd.DataFrame(data=[[log, x]], columns=['files', 'commit'])
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return df
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from common.commons import parallelRunMergeNew
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gitrepo = 'kamailio'
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# checkStat('06e06f026d14e7d61f2ceb14445a683abbbf91bb', gitrepo)
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m = parallelRunMergeNew(checkStat, pushes['commit'].values.tolist(), gitrepo)
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res = pd.merge(pushes, m, on=['commit'])
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#remove empty commits
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res = res[res.files != {}]
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# c changes
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res = res[res.files.apply(lambda x: np.any([i.endswith('.c') for i in x.keys()]))]
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def getJobs(x):
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import requests
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resp = requests.get('https://api.travis-ci.org/repos/kamailio/kamailio/builds/'+str(x))
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if resp.status_code != 200:
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# This means something went wrong.
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raise Exception('GET /tasks/ {}'.format(resp.status_code))
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result = resp.json()
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return result
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res['buildDetails'] = res['id'].apply(lambda x:getJobs(x))
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save_zipped_pickle(res, join(DATA_PATH, 'buildDFprocessed.pickle'))
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res
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def getMatrix(x):
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if len(x) == 1:
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return False
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else:
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for jobs in x:
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if('arch' in jobs['config']):
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if (jobs['config']['arch'] == 'amd64' and jobs['result'] == 1):
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return True
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res['goodBuild'] = res.buildDetails.apply(lambda x:getMatrix(x['matrix']))
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f = '/Users/anil.koyuncu/projects/datasets/kamailio'
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gitrepo = 'kamailio'
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if isfile(join(DATA_PATH,gitrepo + '.df')):
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res = load_zipped_pickle(join(DATA_PATH,gitrepo + '.df'))
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else:
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from commitCollector import makeDF
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#
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# cmd = 'git -C '+f +" log --no-merges --pretty=format:'{\"commit\":\"%H\",\"commitDate\":\"%ci\",\"title\":\"%f\",\"committer\":\"%ce\"}' --follow -- .travis.yml > "+join(DATA_PATH,gitrepo+'.travis')
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# output = shellCallTemplate(cmd,enc='latin1')
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#
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# commits = makeDF(join(DATA_PATH,gitrepo+'.travis'))
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from otherDatasets import checkCommitLog
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# cmd = 'git log --no-merges --pretty=format:'{"commit":"%H","commitDate":"%ci","title":"%f","committer":"%ce"}' > ../tcl.commits'
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cmd = 'git -C ' + f + " log --simplify-merges --date-order -m --pretty=format:'{\"commit\":\"%H\",\"commitDate\":\"%ci\",\"title\":\"%f\",\"committer\":\"%ce\"}' > " + join(DATA_PATH,gitrepo + '.commits')
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output = shellCallTemplate(cmd,enc='latin1')
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commits = makeDF(join(DATA_PATH,gitrepo + '.commits'))
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from common.commons import parallelRunMergeNew
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m = parallelRunMergeNew(checkCommitLog, commits['commit'].values.tolist(), gitrepo)
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res = pd.merge(commits, m, on=['commit'])
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# from common.commons import save_zipped_pickle
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# save_zipped_pickle(res,join(DATA_PATH,gitrepo + '.df'))
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def getRevParse(x):
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cmd = 'git -C ' + f + ' rev-parse ' + x + '^@'
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out, err = shellGitCheckout(cmd, enc='latin1')
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rev = out.strip().split('\n')
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# if len(rev) != 1:
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# print('error')
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df = pd.DataFrame(data=[[rev, x]], columns=['parent', 'commit'])
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return df
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m = parallelRunMergeNew(getRevParse, res['commit'].values.tolist())
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res1 = pd.merge(res, m, on=['commit'])
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save_zipped_pickle(res1, join(DATA_PATH, gitrepo + '.df'))
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# workList = []
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# for i,commit in enumerate(res['commit'].values.tolist()):
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# os.makedirs(join(DATA_PATH, 'tcl_patches',str(i).zfill(5) +'_'+commit ))
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# cmd = 'git -C ' + f + ' format-patch -M100% --text --full-index --binary -n '+ commit+'^..'+commit +' -o ' + join(DATA_PATH, 'tcl_patches',str(i).zfill(5) +'_'+commit)
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# workList.append(cmd)
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#
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# parallelRun(shellGitCheckout,workList)
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# patches = listdir('/Users/anil.koyuncu/projects/datasets/test7')
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travisChanges = res[res.files.apply(lambda x: np.any([i == '.travis.yml' for i in x.keys()]))]
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travisCommits = travisChanges.commit.values.tolist()
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# for travis in travisCommits:
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# cmd = 'git -C ' + f + ' checkout -f '+ travis
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# o, e = shellGitCheckout(cmd)
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# os.makedirs(join(DATA_PATH, 'travis_commits', travis), exist_ok=True)
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# o,e
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# print(o)
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# print(e)
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# cmd = 'cp '+ join(f,'.travis.yml') +" "+ join(DATA_PATH, 'travis_commits', travis)
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# o, e = shellGitCheckout(cmd)
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# o,e
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# newContent = ''
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# with open(join(DATA_PATH, 'travis_commits', travis,'.travis.yml'),'r') as file:
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# travisFile = file.read()
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# regex = r"include:(.*)before_install:"
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# matches = re.finditer(regex, travisFile, re.MULTILINE|re.DOTALL)
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#
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# for matchNum, match in enumerate(matches, start=1):
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# grs = match.groups()
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# if len(re.findall('- name:', match.group(1))) > 0:
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# newContent = travisFile.replace(grs[0],
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# '\n - name: "Linux/GCC/Shared"\n os: linux\n dist: bionic\n compiler: gcc\n env:\n - BUILD_DIR=unix\n')
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# else:
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# newContent = travisFile.replace(grs[0],'\n - os: linux\n dist: xenial\n compiler: clang\n env:\n - BUILD_DIR=unix\n')
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#
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# with open(join(DATA_PATH, 'travis_commits', travis,'.travis.yml'),'w') as file:
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# file.write(newContent)
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res = res.head(res[res.commit == '1cb8068b970358e7b0f47935a2636ca6ae8eceb6'].iloc[0].name)
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res.sort_index(inplace=True, ascending=False)
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# res = res[res.parent.apply(lambda x: len(x) == 1)]
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commits = res.commit.values.tolist()
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branchName = 'test'
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for commit in commits:
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print(commit)
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cmd = 'git -C ' + f + ' checkout -f '+ commit
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o, e = shellGitCheckout(cmd)
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o,e
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print(e)
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if not isfile(join(f, '.travis.yml')):
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continue
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# if commit in travisCommits:
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# cmd = 'git -C ' + f + ' pull -Xtheirs origin ' + branchName
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# o, e = shellGitCheckout(cmd)
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# o,e
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# print(e)
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#
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# cmd = 'cp ' + join(DATA_PATH, 'travis_commits', commit,'.travis.yml')+ " " + f
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# o, e = shellGitCheckout(cmd)
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# o,e
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# print(e)
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# cmd = 'git -C ' + f + ' commit -a -m ' + "'travis'"
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# o, e = shellGitCheckout(cmd)
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# o,e
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# print(e)
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# else:
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#
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# cmd = 'git -C ' + f + ' pull -Xtheirs origin ' + branchName
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# o, e = shellGitCheckout(cmd)
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# o,e
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# print(e)
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cmd = 'git -C ' + f + ' push origin HEAD:'+branchName
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o, e = shellGitCheckout(cmd)
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o,e
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print(e)
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if e.startswith('error'):
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print(e)
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time.sleep(10)
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# ######export patches
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# res['path'] = res[['commit','parent']].apply(lambda x: [(i,x['commit']) for i in x['parent']] ,axis=1)
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# paths = (list(itertools.chain.from_iterable(res.path.values.tolist())))
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#
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#
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# # res['pairs'] = res.apply(lambda x: (x['commit'], x['parent']) if x['parent'] != None else None, axis=1)
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# # res['tuples'] = res.pairs.apply(lambda x: tuple(x))
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# # col_combi = res.tuples.values.tolist()
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# import networkx
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# # #
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# g = networkx.Graph(paths)
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# cluster = []
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# for subgraph in networkx.connected_component_subgraphs(g):
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# logging.info('Cluster size %d', len(subgraph.nodes()))
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# cluster.append(subgraph.nodes())
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# cluster
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# # p = networkx.shortest_path(g)
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# # p
|
||||
#
|
||||
# parentDictionary= dict(networkx.dfs_successors(g, source=''))
|
||||
# workList = []
|
||||
# for i,c in enumerate(list(pairwise(list(networkx.dfs_preorder_nodes(g, source=''))))):
|
||||
# parent,commit = c
|
||||
# if parent =='':
|
||||
# continue
|
||||
# os.makedirs(join(DATA_PATH, 'tcl_patches_',str(i).zfill(5) +'_'+parent ),exist_ok=True)
|
||||
#
|
||||
# cmd = 'git -C ' + f + ' format-patch -M100% --text --full-index --binary -n '+ parent+'..'+commit +' -o ' + join(DATA_PATH, 'tcl_patches_',str(i).zfill(5) +'_'+parent)
|
||||
# workList.append(cmd)
|
||||
#
|
||||
# parallelRun(shellGitCheckout,workList)
|
||||
#
|
||||
# ########end export patches
|
||||
#
|
||||
# # import matplotlib.pyplot as plt
|
||||
# # networkx.draw(g, with_labels=True, font_weight='bold')
|
||||
# # plt.subplot(122)
|
||||
# # cluster.sort(key=len, reverse=True)
|
||||
# # connectedCommits = [i for i in cluster[0]] #10280
|
||||
# # res['connected']=res.commit.apply(lambda x: x in connectedCommits)
|
||||
# #
|
||||
# # selectedPatches = res[['commit','rowIndex', 'parent', 'connected', 'parentPos']]
|
||||
# # selectedPatches.sort_values(by='parentPos', ascending=False, inplace=True)
|
||||
# # selectedPatches[selectedPatches['connected'] == True]
|
||||
#
|
||||
#
|
||||
# #
|
||||
# # # parentDict = res[['parent']].to_dict()
|
||||
# # # pDict = {value: key for key, value in parentDict['parent'].items()}
|
||||
# # # res['hasParent'] = res.commit.apply(lambda x: x in pDict)
|
||||
# # ## find good commits
|
||||
# # # orderDict = res[['commit']].to_dict()
|
||||
# # #
|
||||
# # # dict = {value: key for key, value in orderDict['commit'].items()}
|
||||
# # #
|
||||
# # # res['parentPos'] =res.parent.apply(lambda x: dict[x] if x in dict else None)
|
||||
# # #
|
||||
# # #
|
||||
# # #
|
||||
# # #
|
||||
# # # def rowIndex(row):
|
||||
# # # return row.name
|
||||
# # #
|
||||
# # #
|
||||
# # # res['rowIndex'] = res.apply(rowIndex, axis=1)
|
||||
# # #
|
||||
# # # save_zipped_pickle(res, join(DATA_PATH, gitrepo + '.df'))
|
||||
# # ## end find good commits
|
||||
# # travisChanges = res[res.files.apply(lambda x: np.any([i == '.travis.yml' for i in x.keys()]))]
|
||||
# # travisCommits = travisChanges.commit.values.tolist()
|
||||
# #
|
||||
# #
|
||||
# # for i, commit in zip(selectedPatches['rowIndex'].values.tolist(),selectedPatches['commit'].values.tolist()):
|
||||
# # print(i,commit)
|
||||
# # if commit in travisCommits:
|
||||
# # print()
|
||||
# # patch = str(i).zfill(5) + "_" + commit
|
||||
# # p = listdir(join(DATA_PATH, 'tcl_patches', patch))
|
||||
# # if(len(p) == 0):
|
||||
# # continue
|
||||
# # if(len(p) > 1):
|
||||
# # print('error')
|
||||
# # cmd = 'git -C ' + f + ' am -q -3 --whitespace=nowarn ' + join(DATA_PATH, 'tcl_patches', patch, p[0])
|
||||
# # o,e= shellGitCheckout(cmd)
|
||||
# # # print(o)
|
||||
# # # print(e)
|
||||
# #
|
||||
# # if len(e)> 0:
|
||||
# # print(patch)
|
||||
# #
|
||||
# # cmd = 'git -C ' + f + ' push'
|
||||
# # o, e = shellGitCheckout(cmd)
|
||||
# # o,e
|
||||
#
|
||||
# patches = listdir(join(DATA_PATH, 'tcl_patches_'))
|
||||
# patches.sort()
|
||||
#
|
||||
# for patch in patches:
|
||||
# if patch == '.DS_Store':
|
||||
# continue
|
||||
# # if patch.split('_')[1] in travisCommits:
|
||||
# # print()
|
||||
# p = listdir(join(DATA_PATH, 'tcl_patches_', patch))
|
||||
#
|
||||
# if(len(p) == 0):
|
||||
# continue
|
||||
# p.sort()
|
||||
# if(len(p) > 1):
|
||||
# print('error')
|
||||
#
|
||||
# # if(p[0] == '0001-Initial-revision.patch'):
|
||||
# # continue
|
||||
# for actualPatch in p:
|
||||
# cmd = 'git -C ' + f + ' am -q -3 --whitespace=nowarn ' + join(DATA_PATH, 'tcl_patches_', patch, actualPatch)
|
||||
# # cmd = 'git -C ' + f + ' am -q -3 --whitespace=nowarn ' + join('/Users/anil.koyuncu/projects/datasets/test7', patch)
|
||||
# o,e= shellGitCheckout(cmd)
|
||||
# # print(o)
|
||||
# # print(e)
|
||||
#
|
||||
# if len(e)> 0:
|
||||
# print(patch)
|
||||
#
|
||||
# # cmd = 'git -C ' + f + ' push'
|
||||
# # o, e = shellGitCheckout(cmd)
|
||||
# # o,e
|
||||
|
||||
|
||||
|
||||
# for i,v in zip(travisChanges.commit.index.tolist(),travisChanges.commit.values.tolist()):
|
||||
# i,v
|
||||
|
||||
|
||||
# '''
|
||||
# git checkout master
|
||||
# git branch -D start
|
||||
# git checkout -f -b start c6a259aeeca4814a97cf6694814c63e74e4e18fa
|
||||
# git checkout -f -b start 1cb8068b970358e7b0f47935a2636ca6ae8eceb6
|
||||
# git gc --prune=now
|
||||
# git push --set-upstream origin startTravis
|
||||
|
||||
#563 from test branch start
|
||||
# '''
|
||||
else:
|
||||
logging.error('Unknown job %s',job)
|
||||
except Exception as e:
|
||||
|
||||
Reference in New Issue
Block a user