Full rewrite of mkdb script
This commit is contained in:
eugen.betke
parent
d7b1d08328
commit
1ab905866b
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@ -8,6 +8,9 @@ import sqlite3
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import traceback
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import glob
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import pprint
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import numpy as np
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from scipy import stats
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import json
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__version = "0.8"
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__license__ = "GPL"
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@ -15,114 +18,157 @@ __author__ = "Eugen"
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__date__ = "2018"
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def parse(filename, conn):
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exptype = 0
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data = {}
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metadata = {}
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with open(filename, "r") as f:
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metadata["filename"] = filename
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for line in f:
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#COUNT:1#NN:1#PPN:4#API:POSIX#T:10485760.txt
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#merged_output/COUNT:1#NN:8#PPN:8#API:POSIX#T:16384#APP:ior-default#FS:lustre#IOTYPE:random#ACCESSTYPE:write#STRIPING:yes.txt
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m = re.match("COUNT:([0-9]+)#NN:([0-9]+)#PPN:([0-9]+)#API:([\w]+)#T:([0-9]+)#APP:([-\w]+)#FS:([\w]+)#IOTYPE:([\w]+)#ACCESSTYPE:([\w]+)#STRIPING:([\w]+).txt", os.path.basename(filename))
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if (m):
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metadata["count"] = int(m.group(1))
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metadata["nn"] = int(m.group(2))
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metadata["ppn"] = int(m.group(3))
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metadata["api"] = m.group(4)
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metadata["tsize"] = m.group(5)
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metadata["app"] = m.group(6)
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metadata["fs"] = m.group(7)
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metadata["iotype"] = m.group(8)
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metadata["accesstype"] = m.group(9)
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metadata["striping"] = m.group(10)
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else:
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print('couldn\'t parse', os.path.basename(filename))
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print(data)
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def splitFn(fn:str):
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base = os.path.basename(fn).replace("isc17-", "isc17").split('.')[0]
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tokens = base.split('-')
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try:
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info = dict(token.split(':') for token in tokens )
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except:
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print("Invalid tokens: ", tokens)
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quit()
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res = dict((k.lower(), int(v.lower()) if v.lower().isdigit() else v.lower()) for k, v in info.items())
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res['filename'] = fn
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return res
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m = re.match("Command line used: .* -s[\s]+([0-9.]+)[\s]+-t[\s]+([0-9.]+)[\s]+-b[\s]+([0-9.]+)[\s]+-o.*", line)
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def parseIorOutput(fn):
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selffn = fn + ".json"
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res = dict()
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with open(selffn) as f:
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data = json.load(f)
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#print(json.dumps(data, indent=4))
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res.update(data['tests'][0]['Results'][0][0])
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#print(data['tests'][0]['Results'][0][0])
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#print(res)
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return res
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def parseSysCounters(fn:str):
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counter_start_files = glob.glob(fn + "_network/*start.txt")
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res = dict()
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table = dict()
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table['duration'] = list()
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table['PortXmitData'] = list()
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table['PortRcvData'] = list()
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counter = 0
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for sysfile_start in counter_start_files:
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counter = counter + 1
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start = _parseSysCounters(sysfile_start)
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stop = _parseSysCounters(sysfile_start.replace('start', 'stop'))
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table['duration'].append(stop['timestamp'] - start['timestamp'])
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table['PortXmitData'].append(stop['PortXmitData'] - start['PortXmitData'])
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table['PortRcvData'].append(stop['PortRcvData'] - start['PortRcvData'])
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res['duration'] = stats.hmean(table['duration'])
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res['PortXmitData'] = np.sum(table['PortXmitData']) / res['duration'] / 1024 / 1024
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res['PortRcvData'] = np.sum(table['PortRcvData']) / res['duration'] / 1024 / 1024
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return res
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def _parseSysCounters(fn:str):
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res = {"filename": fn}
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res.update(splitFn(fn))
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colnames = list()
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with open(fn, "r") as f:
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for line in f:
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m = re.match("(TIMESTAMP)\s+([0-9]+)", line)
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if (m):
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metadata["fsize"] = float(m.group(1)) * float(m.group(3)) * data["ppn"] * data["nn"]
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res[m.group(1).lower()] = int(m.group(2))
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m = re.match("[\s]+aggregate filesize = (.*)", line)
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m = re.match("(PortXmitData):\.+([0-9]+)", line)
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if (m):
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metadata["fsize_ctl"] = m.group(1)
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res[m.group(1)] = int(m.group(2))
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m = re.match("(read|write)[\s]+([0-9.]+)[\s]+([0-9.]+)[\s]+([0-9.]+)[\s]+([0-9.]+)[\s]+([0-9.]+)[\s]+([0-9.]+)[\s]+([0-9.]+)[\s]+([0-9.]+)[\s]*$", line)
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m = re.match("(PortRcvData):\.+([0-9]+)", line)
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if (m):
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if m.group(9) not in data:
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data[m.group(9)] = dict()
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data[m.group(9)]["perf"] = float(m.group(2))
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data[m.group(9)]["open"] = float(m.group(5))
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data[m.group(9)]["io"] = float(m.group(6))
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data[m.group(9)]["close"] = float(m.group(7))
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data[m.group(9)]["total"] = float(m.group(8))
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data[m.group(9)]["iter"] = float(m.group(9))
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data[m.group(9)].update(metadata)
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res[m.group(1)] = int(m.group(2))
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m = re.match("(max_cached_mb):\s+([0-9]+)", line)
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if (m):
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res[m.group(1)] = int(m.group(2))
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m = re.match("(used_mb):\s+([0-9]+)", line)
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if (m):
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res[m.group(1)] = int(m.group(2))
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m = re.match("\s+(face).*", line)
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if (m):
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colnames = line.replace('|', " ").split()
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for i in range(1, 9):
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colnames[i] = "send_" + colnames[i]
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for i in range(9, 17):
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colnames[i] = "recv_" + colnames[i]
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m = re.match("\s+(ib[0-9]+|eno[0-9]+).*", line)
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if (m):
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tokens = line.replace('|', " ").split()
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for i in [1, 9]:
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res[m.group(1) + "_" + colnames[i]] = int(tokens[i])
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return res
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for iteration,entry in data.items():
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if len(entry) == 18:
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class DBWriter:
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def __init__(self, fn:str):
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self.conn = sqlite3.connect(fn)
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self.map = {float:'float', int:'int', str:'text', np.float64:'float'}
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def __del__(self):
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self.conn.commit()
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self.conn.close()
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def create(self, data:dict()):
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self.len = len(data)
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cols = ["%s %s" % (k,self.map[type(v)]) for k,v in data.items()]
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colnames = ','.join(cols)
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print(colnames)
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query = 'CREATE TABLE p (%s, primary key(filename))' % colnames
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try:
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self.conn.execute(query)
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except Exception as e:
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print("could not create db")
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print(e)
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def insert(self, entry:dict()):
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if len(entry) == self.len:
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print("Success")
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columns = ", ".join(entry.keys())
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placeholders = ':' + ', :'.join(entry.keys())
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try:
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conn.execute("INSERT INTO p (%s) VALUES (%s)" %(columns, placeholders), entry)
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self.conn.execute("INSERT INTO p (%s) VALUES (%s)" %(columns, placeholders), entry)
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except sqlite3.IntegrityError as e:
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print("Already imported")
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else:
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print("Error in file %s with tuples %s size %d"% (filename, entry, len(entry)))
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exptype += 1;
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#parse("./results/iozone/NP:2/C:0/T:100/output_app.txt", conn, style)
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def main():
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assert(3 == len(sys.argv))
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folder = sys.argv[1]
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dbname = sys.argv[2]
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db = DBWriter(dbname)
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conn = sqlite3.connect(dbname)
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try:
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tbl = 'CREATE TABLE p (\
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filename text, \
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count int, \
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nn int, \
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ppn int, \
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api text, \
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tsize float, \
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app text, \
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fs text, \
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iotype text, \
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accesstype text, \
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striping text, \
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fsize float, \
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fsize_ctl txt, \
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open float, \
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io float, \
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close float, \
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total float, \
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perf float, \
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iter float, \
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primary key(filename, iter) \
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)'
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conn.execute(tbl)
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except Exception as e:
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print("could not create db")
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print(e)
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tabexists = False
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for filename in glob.glob(folder + "/*.txt"):
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print("Parsing " + filename)
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data = dict()
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data.update(splitFn(filename))
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data.update(parseSysCounters(filename))
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data.update(parseIorOutput(filename))
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if not tabexists:
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print(data)
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db.create(data)
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tabexists = True
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db.insert(data)
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print(data)
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for filename in glob.glob(folder + "/*"):
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#print("Parsing " + filename)
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parse(filename, conn)
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conn.commit()
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conn.close()
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if __name__ == "__main__":
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main()
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