getIBLDate.py

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# Copyright (C) 2002-2024 CERN for the benefit of the ATLAS collaboration
 
# Python script from Nick Dann
# Clean-ups for clarity and additional comments from Jennet Dickinson
# Search for JENNET to find where to replace file paths etc
# Nick set this up multithreaded, but Jennet prefers not to run this way,
# so she can more easily see what is going on
 
# Comments from Nick:
# Multithreaded python script which finds files downloaded from the ATLAS DDV, reads in the data, then saves the data in seperate files for each DCS group.
# Files from DDV should be in format YYYY_MM_DD-YYYY_MM_DD.txt
# I save to SENSORNAME.ssv (space seperated variable). I usually save times as YYYY-MM-DD HH:MM:SS UTC timestamp value. Times are CERN time (CEST or CET).
 
# scanDataThread is the thread declaration
# scanData (dataType) is the function which you should call to start the searching; datatype should be a string.
 
#!/usr/bin/env python
import os
import datetime
import time
import sys
import threading
 
 
# converts from IBL stave, senors and side to DCS group number (<112)
def sensorToNumber(stave, side, module):
 
    number = 8 * (int(stave)-1) + module
    if side == 'C':
        number += 4
    return number-1
 
 
def findFiles(searchFolderPath):  # find all files in searchFolderPath, return as list
 
    try:
        os.chdir(searchFolderPath)
    except IOError:
        print('No entries in ' + searchFolderPath)
        return -1
 
    todaysList = []
 
    # SOMEHOW, this searches the search Folder and returns a list of contained files in well... files.
    for src_dir, dirs, files in os.walk(searchFolderPath):
        # i parse through the files, I think. For each, I check if there's a reference to it in the
        # diary entry for the day. If not, I go ahead and append the figure to the relevent diary entry.
        for file_ in files:
            sortedFile = os.path.join(src_dir, file_)
            todaysList.append(str(sortedFile))
        # now we've got a list containing all files we want to add, sort it alphabetically and add them.
    todaysList.sort()
    return todaysList
 
# Function that actually reads in data from fileName, saves it to... somewhere. Probably dataFolder/datatype/modulename.ssv . It also returns
# stuff like the most recent dates for all DCS groups (endDates), and number of datapoints found for each DCS group (tempDataNumbers).
# Probably says something if it can't read the data as well. Gonna be honest, DDV is a bit of a nightmare and I've spent too long messing
# around with it to remember what my bodges are.
 
 
def appendEntries(fileName, dataType, dataFolder, dateEntries, largestDates, firstDate, lastDate, borkDate):
 
    try:
        with open(fileName, 'r') as rawFiles:
 
            returnList = [firstDate, largestDates,
                          borkDate, dateEntries, firstDate]
 
            print(firstDate)
 
            index_Jennet = 0
            # read in each line of fileName and do things to it. Does this work with empty files? I'm guessing so.
            for dataLine in rawFiles:
 
                print(index_Jennet)
                index_Jennet = index_Jennet + 1
                # We actually have two types of data file from DDV, one containing lots of commas, one which doesn't. The len(commasplit) thing is how I
                # differentiate between the two types.
 
                if len(dataLine) > 5:
                    commaSplit = dataLine.split(',')
 
                    if '!!!!' in dataLine:  # Our entry is blank, leg it!
                        return returnList
 
                    if len(commaSplit) < 2:
 
                        # file is from DownloadTxtData. Erm, I'm not gonna comment this, rough idea is split tempLines, 0th element is the sensor name,
                        # grab the DCS flags from the name, use it to make teh module name. If that module name is unexpected, break and report an error
 
                        tempLines = dataLine.split()
                        name = tempLines[0]
                        A = name[4:6]
                        B = name[7]
                        C = name[10]
 
                        moduleName = 'LI_S' + \
                            str(A) + '_' + str(B) + '_M' + str(C)
 
                        moduleNumber = int(8 * (int(A)-1) + int(C)-1)
                        if B == 'C':
                            moduleNumber += 4
 
                        # This section is true if the data is bad; break and return
                        if (name != moduleName+"_"+dataType) or (len(tempLines) < 3):
                            returnList[2] = lastDate
                            print("\nBORK BORK BORK! Error in data values of " + fileName +
                                  " for " + dataType + " borkDate " + str(returnList[2]))
                            print("First line reads " + dataLine+"\n")
                            print("should read " + moduleName+"_"+dataType+"\n")
 
                            with open(dataFolder+dataType+"BORKBORKBORK.txt", 'w') as borkRepork:
                                borkRepork.write("filename " + fileName + "date range " + str(
                                    firstDate) + "-" + str(lastDate) + " first line " + dataLine + '\n')
 
                            return returnList
 
                        outName = dataFolder+dataType+'/' + moduleName + \
                            '.ssv'  # save file name made here!
 
                        date = tempLines[1].split('-')
                        time1 = tempLines[2].split(':')
                        data = 0
 
                        # Oh yeah, DDV switched to reporting absolute values to magnitudes for bias and current at some point.
                        if dataType == 'TModule':
                            data = tempLines[3]
                        else:  # if current or bias, only use absolute values, instead of y'know, signed values. Stupid DDV.
                            data = abs(float(tempLines[3]))
                        dateTime = datetime.datetime(int(date[2]), int(date[1]), int(
                            date[0]), int(time1[0]), int(time1[1]), int(time1[2]), int(time1[3]))
 
                        # This checks if the values are within the expected range, if not the below is true and it borks and returns.
                        if (dateTime > lastDate+datetime.timedelta(hours=2)) or (dateTime < firstDate - datetime.timedelta(hours=2)):
                            returnList[2] = lastDate
                            print("\nBORK BORK BORK! Error in date of " + fileName +
                                  " for " + dataType + " borkDate " + str(returnList[2]))
                            print("First line reads " + dataLine + "\n")
                            print("should read " + moduleName+"_"+dataType+"\n")
 
                            with open(dataFolder+dataType+"BORKBORKBORK.txt", 'w') as borkRepork:
                                borkRepork.write("filename " + fileName + "date range " + str(
                                    firstDate) + "-" + str(lastDate) + " first line " + dataLine + '\n')
                            return returnList
 
                        # if the end  time for data is bigger than the previous max value for this DCS group. I think
                        if dateTime > returnList[1][moduleNumber]:
                            returnList[3][moduleNumber] += 1
 
                            # format the line for saving to the finished file area he clunked clunkily. Change this if you wanna change the output format.
                            outputLine = moduleName+'_'+dataType + " " + \
                                str(dateTime) + " " + str(time.mktime(dateTime.timetuple())
                                                          ) + " " + str(data) + "\n"
 
                            returnList[1][moduleNumber] = dateTime
 
                            # check if output file already exists, if not create it, if so append previous file.
                            mode = 'a' if os.path.isfile(outName) else 'w'
                            with open(outName, 'w') as output:
                                output.write(outputLine)
 
                    else:
                        # from getDataSafely, format here splits data based on !!! between DCS groups.
 
                        moduleList = dataLine.split('!!!')
 
                        for module in moduleList:  # Hah, look at me using accurate labels for my variables!
 
                            elements = module.split(',')
                            name = elements[0]
                            A = "A"
                            B = "A"
                            C = "A"
                            if len(name) > 9:
                                # print (name)
                                A = name[4:6]
                                B = name[7]
                                C = name[10]
 
                            moduleName = 'LI_S' + \
                                str(A) + '_' + str(B) + '_M' + str(C)
 
                            try:
                                moduleNumber = int(8 * (int(A)-1) + int(C)-1)
                                if B == 'C':
                                    moduleNumber += 4
 
                                outName = dataFolder+dataType+'/' + moduleName + '.ssv'
 
                                # check if file exists, make it if not, append it if so.
                                mode = 'a' if os.path.isfile(outName) else 'w'
                                with open(outName, mode) as output:
                                    position = 0
 
                                    # I'm like 90% sure each element is a single time (so, time and sensor reading). This makes this process slow.
                                    for element in elements:
 
                                        if position != 0:  # the first element is the DCS group name; not hella useful.
 
                                            tempLines = element.split()
                                            date = tempLines[1].split('-')
                                            time1 = tempLines[2].split(':')
                                            data = 0
 
                                            # Make sure we use absolute values for current and bias.
                                            if dataType == 'TModule':
                                                data = tempLines[0]
                                            else:
                                                data = abs(float(tempLines[0]))
 
                                            dateTime = datetime.datetime(int(date[2]), int(date[1]), int(
                                                date[0]), int(time1[0]), int(time1[1]), int(time1[2]), int(time1[3]))
 
                                            # true if data stuff
                                            if (dateTime > lastDate+datetime.timedelta(hours=2)) or (dateTime < firstDate - datetime.timedelta(hours=2)):
                                                returnList[2] = lastDate
                                                print("\nBORK BORK BORK! Error in date of " + fileName +
                                                      " for " + dataType + " borkDate " + str(returnList[2]))
                                                print(
                                                    "First line reads " + dataLine + "\n")
                                                print(
                                                    "Should read " + moduleName+"_"+dataType+"\n")
 
                                                with open(dataFolder+dataType+"BORKBORKBORK.txt", 'w') as borkRepork:
                                                    borkRepork.write("filename " + fileName + "date range " + str(
                                                        firstDate) + "-" + str(lastDate) + " first line " + dataLine + '\n')
                                                return returnList
 
                                            # if time in right range, output.
                                            if dateTime > returnList[1][moduleNumber]:
                                                returnList[3][moduleNumber] += 1
                                                outputLine = moduleName + "_" + dataType + " " + \
                                                    str(dateTime) + " " + str(time.mktime(
                                                        dateTime.timetuple())) + " " + str(data) + "\n"
 
                                                returnList[1][moduleNumber] = dateTime
 
                                                output.write(outputLine)
 
                                        position += 1
 
                                    output.close()
 
                            except:  # we failed at something, so print out an error message and run away screaming
                                returnList[2] = lastDate
                                print("Something broke :( \n")
                                print("Could be an error in data values of " + fileName +
                                      " for " + dataType + " borkDate " + str(returnList[2]))
                                print("First line reads " + name + "\n")
 
                                with open(dataFolder+dataType+"BORKBORKBORK.txt", 'w') as borkRepork:
                                    borkRepork.write("filename " + fileName + "date range " + str(
                                        firstDate) + "-" + str(lastDate) + " first line " + dataLine + '\n')
                                print(
                                    "Try running again... often this is an issue with the connection to eos")
                                return returnList
 
    except IOError:
        print("could not open file " + str(fileName) + " fool")
        # So this probably crashes if filename can't be opened. Try not to let that happen.
        return firstDate
 
    return returnList
 
 
def scanData(dataType):
 
    # home directory definition
    fillerDate = datetime.datetime(2000, 1, 1, 1, 1, 1, 1)
    returnList = [fillerDate, fillerDate, fillerDate, False, "LI_S00_0_M0"]
    # JENNET setsfile paths
    homeDirectory = os.path.expanduser(
        '/eos/atlas/user/j/jdickins/Pixel/LeakageCurrent/')
 
    # define path to folder
    dataFolder = homeDirectory + "/IBLData/processedData/"
    inputFolder = homeDirectory + "/IBLData/rawData/"+dataType+"/"
    entriesFolder = homeDirectory + "/IBLData/rawData/entriesPerDay/" + dataType + "/"
 
    # make directories if they don't exist
    if not os.path.exists(dataFolder+dataType):
        os.mkdir(dataFolder+dataType)
 
    if not os.path.exists(entriesFolder):
        os.mkdir(entriesFolder)
 
    # declare some stuff, so it's in scope when we need it
    startingDates = []
    endDates = []
    filesProcessed = []
    dataPoints = []
    dailyPoints = []
    smallestEndDate = fillerDate
 
    # This section checks to see if there's a file containing the dates we've worked up till.
    if not os.path.exists(dataFolder+dataType+".txt"):
 
        # No dates file found, so create one.
        print("No any file found! at " + dataFolder +
              dataType + " Making default values")
        # set default max and min values for each sensor
 
        with open(dataFolder+dataType+".txt", 'w') as datesFile:
            firstTempDate = datetime.datetime(2015, 5, 1, 0, 0, 0, 0)
            lastTempDate = datetime.datetime(2015, 5, 1, 0, 0, 0, 1)
            smallestEndDate = lastTempDate
 
            for stave in range(1, 15):
                staveString = str(stave)
                if stave < 10:
                    staveString = "0"+str(stave)
                for side in ['A', 'C']:
                    for DCSGroup in range(1, 5):
                        moduleName = 'LI_S' + \
                            str(staveString) + '_' + \
                            side + '_M' + str(DCSGroup)
                        datesFile.write(
                            moduleName + " " + str(firstTempDate) + " " + str(lastTempDate) + " 0 0\n")
                        startingDates.append(firstTempDate)
                        endDates.append(lastTempDate)
                        filesProcessed.append(0)
                        dataPoints.append(0)
                        dailyPoints.append(0)
 
    else:  # dates file exists, so read dates for each DCS group
        print("Found " + dataFolder+dataType+".txt")
        with open(dataFolder+dataType+".txt", 'r') as datesFile:
 
            holder = 0
 
            for dateLine in datesFile:  # read each line in, each line should correspond to one DCS group
 
                tempDatesLine = dateLine.split()
                filesProcessed.append(int(tempDatesLine[5]))
                dataPoints.append(int(tempDatesLine[6]))
                dailyPoints.append(0)
 
                firstTemp = tempDatesLine[1].split('-')
                lastTemp = tempDatesLine[3].split('-')
 
                firstTempTime = tempDatesLine[2].split(':')
                lastTempTime = tempDatesLine[4].split(':')
 
                firstTempTimes = firstTempTime[2].split('.')
                lastTempTimes = lastTempTime[2].split('.')
 
                if len(firstTempTimes) < 2:
                    firstTempTimes.append(0)
                if len(lastTempTimes) < 2:
                    lastTempTimes.append(0)
 
                firstTempDate = datetime.datetime(
                    int(firstTemp[0]), int(firstTemp[1]), int(firstTemp[2]),
                    int(firstTempTime[0]), int(firstTempTime[1]),
                    int(firstTempTimes[0]), int(firstTempTimes[1]))
                lastTempDate = datetime.datetime(
                    int(lastTemp[0]), int(lastTemp[1]), int(lastTemp[2]),
                    int(lastTempTime[0]), int(lastTempTime[1]),
                    int(lastTempTimes[0]), int(lastTempTimes[1]))
 
                startingDates.append(firstTempDate)
                endDates.append(lastTempDate)
 
                if holder == 0:
                    returnList[0] = firstTempDate
                    returnList[1] = lastTempDate
                    smallestEndDate = lastTempDate
 
                else:
                    if firstTempDate < returnList[0]:
                        returnList[0] = firstTempDate
                    if lastTempDate > returnList[1]:
                        returnList[1] = lastTempDate
                    if lastTempDate < smallestEndDate:
                        smallestEndDate = lastTempDate
 
                holder += 1
 
        print("Investigating " + dataType + " from " + str(smallestEndDate))
 
    holder = 0
 
    # call function to return list of all files in input folder
    fileList = findFiles(inputFolder)
 
    firstTempDate = startingDates[0]
    lastTempDate = endDates[0]
    fileNumber = 0
 
    # iterate through all files from file list, opening them if they're in the time period of interest.
    for fileName in fileList:
 
        # print(fileName)
 
        end = len(fileName)
        endDate1 = fileName[end-4:end]
        endDate2 = fileName[end-7:end-6]
 
        # check file ends with text, and contains underscore in expected place; Could make this more rigorous
        if endDate1 == '.txt' and endDate2 == '_':
 
            startDate = fileName[end-23:end-15]
            endDate = fileName[end-12:end-4]
            endDateSplit = endDate.split('_')
            endDateFile = datetime.datetime(
                2000+int(endDateSplit[0]), int(endDateSplit[1]), int(endDateSplit[2]), 0, 0, 0, 1)
 
            startDateSplit = startDate.split('_')
            startDateFile = datetime.datetime(
                2000+int(startDateSplit[0]), int(startDateSplit[1]), int(startDateSplit[2]), 0, 0, 0, 1)
 
            if endDateFile > smallestEndDate:  # data from region of interest
                # APPEND FILES DOING THINGS HERE
 
                lastTempDate = endDateFile
                [firstTempDate, endDates, fillerDate, tempDataNumbers, smallestEndDate] = appendEntries(
                    fileName, dataType, dataFolder, dailyPoints, endDates, startDateFile, endDateFile, fillerDate)
                # append entries called here. Editing of data files done at that location.
 
                # 112 DCS groups for IBL, if you're doing something else, change that number.
                for i in range(0, 112):
 
                    filesProcessed[i] += 1  # number of files
                    # number of data points for each DCS group
                    dataPoints[i] += tempDataNumbers[i]
 
                holderX = 0
 
                # this does something. Probably recording number of data points per day for each DCS group
                for stave in range(1, 15):
                    staveString = str(stave)
                    if stave < 10:
                        staveString = "0"+str(stave)
                    for side in ['A', 'C']:
                        for DCSGroup in range(1, 5):
                            moduleName = 'LI_S' + \
                                str(staveString) + '_' + \
                                side + '_M' + str(DCSGroup)
                            outName = entriesFolder + moduleName + ".txt"
                            dataLine = str(startDate) + " " + \
                                str(tempDataNumbers[holderX]) + "\n"
                            tempDataNumbers[holderX] = 0
 
                            mode = 'a' if os.path.isfile(outName) else 'w'
                            with open(outName, mode) as output:
                                output.write(dataLine)
                            holderX += 1
 
                # check if the list is bork-a-dorked. If borked, save and break
                if returnList[2] != fillerDate:
                    returnList[2] = fillerDate
                    with open(dataFolder+dataType+".txt", 'w') as datesFile:
                        tempHolder = 0
                        for stave in range(1, 15):
                            staveString = str(stave)
                            if stave < 10:
                                staveString = "0"+str(stave)
                            for side in ['A', 'C']:
                                for DCSGroup in range(1, 5):
                                    moduleName = 'LI_S' + \
                                        str(staveString) + '_' + \
                                        side + '_M' + str(DCSGroup)
                                    datesFile.write(moduleName + " " + str(startingDates[tempHolder]) + " " + str(
                                        endDates[tempHolder]) + " " + str(filesProcessed[tempHolder]) + " " + str(dataPoints[tempHolder]) + "\n")
                                    tempHolder += 1
 
                    return returnList
 
        sys.stdout.flush()
        fileNumber += 1
 
    # open file, go through lists, if value < smallest, set to that,
 
    # if number bigger, set to that
    # if any value smaller than previous largest value, bork bork!
 
    holder += 1
 
    with open(dataFolder+dataType+".txt", 'w') as datesFile:
        tempHolder = 0
        for staveX in range(1, 15):
            staveStringX = str(staveX)
            if staveX < 10:
                staveStringX = "0"+str(staveX)
            for sideX in ['A', 'C']:
                for DCSGroupX in range(1, 5):
                    moduleNameX = 'LI_S' + \
                        str(staveStringX) + '_' + sideX + '_M' + str(DCSGroupX)
                    datesFile.write(moduleNameX + " " + str(startingDates[tempHolder]) + " " + str(
                        endDates[tempHolder]) + " " + str(filesProcessed[tempHolder]) + " " + str(dataPoints[tempHolder]) + "\n")
                    tempHolder += 1
 
    returnList[3] = True
 
    return returnList
 
 
class scanDataThread (threading.Thread):
    def __init__(self, threadID, name):
        threading.Thread.__init__(self)
        self.threadID = threadID
        self.name = name
 
    def run(self):
        print("Starting getIBLDate.py for " + self.name)
        returnList = scanData(self.name)
        print("Exiting getIBLDate.py for " + self.name + " with no issues, data range from " +
              str(returnList[0]) + " to " + str(returnList[1]))
 

 
 
def main():
 
    thread1 = scanDataThread(1, 'HV_VMeas')
    thread1.start()
 
    thread2 = scanDataThread(2, 'PP4LV')
    thread2.start()
 
    thread3 = scanDataThread(3, 'HV_IMeas')
    thread3.start()
 
    thread4 = scanDataThread(4, 'TModule')
    thread4.start()
 
 
if __name__ == "__main__":
    main()