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How to use getSD method in autotest
Best Python code snippet using autotest_python
Task_1.py
Source:Task_1.py 
1import CarRental2import datetime3import re4monthName = ['January', 'February', 'March', 'April', 'May', 'June', 'July', 'August', 'September', 'October',5 'November', 'December']6#modifying date format function7def modifyDate(entry):8 # We will be modifying:9 # 1)The date of birth of each object10 flag = 011 object = re.search(r"[-/][0-9]*[-/]", entry.getDob(),re.M | re.S) # if the date has the format of "/digit/" or "-digit-" it should be modified12 if object:13 replaceString = monthName[int(object.group()[1:len(object.group()) - 1]) - 1] # the replace string is the monthName element indexed by the digit14 entry.setDob(re.sub(r"[-/][0-9]*[-/]", " " + replaceString + " ", entry.getDob()))15 flag = 116 # 2)The start rental date of each object17 object = re.search(r"[-/][0-9]*[-/]", entry.getSd(), re.M | re.S)18 if object:19 replaceString = monthName[int(object.group()[1:len(object.group()) - 1]) - 1]20 entry.setSd(re.sub(r"[-/][0-9]*[-/]", " " + replaceString + " ", entry.getSd()))21 flag= 122 # 3)The end rental date of each object23 object = re.search(r"[-/][0-9]*[-/]", entry.getEd(), re.M | re.S)24 if object:25 replaceString = monthName[int(object.group()[1:len(object.group()) - 1]) - 1]26 entry.setEd(re.sub(r"[-/][0-9]*[-/]", " " + replaceString + " ", entry.getEd()))27 flag = 128 return flag29# function to try and complete the missing information30def completeMissing(list):31 missingList=[] # this is a list to put the elements which can't be completed32 completeList=[] # this is a list to put the elements which are completed33 printList1 = [0,0,0,0,0,0,0,0,0,0] #this list will be counting data for printing summary for completed/recovered entries34 printList2 = [0,0,0,0,0,0,0,0,0,0] #this list will be counting data for printing summary for uncompleted entries(either missing cl, or missing more than a field so that it can not be filled35 for i in list:36 countList = [0, 0, 0, 0, 0, 0, 0, 0, 0, 0] #this list will be couting the data for printing summary for each entry seperately37 flag = modifyDate(i) #if any date in the entry is modified, flag is set to one38 countList[1] = flag #countList[1] represents if entry is with wrong date format39 if(i.getCl()!=""): #if cl is missing, then this entry can not be completed40 if (i.getId() == "" or i.getName() == "" or i.getDob() == "" or i.getMobile() == "" or i.getCm() == "" or41 i.getYear() == "" or i.getSd() == "" or i.getEd() == "" or i.getRb() == ""):42 for j in list: #start searching the list, to fill the incompleted entry43 if (i.getCl() == j.getCl()):44 # get the missing cm from the j.getCm is it's exist45 if (i.getCm() == ""):46 countList[7] = 1 #countList[7] states whether a missing cm or not47 if(j.getCm() != ""):48 i.setCm(j.getCm())49 # get the missing year from the j.getYear is it's exist50 if (i.getYear() == ""):51 countList[9] = 1 #countList[9] states whether the year is missing in this entry or not52 if(j.getYear() != ""):53 i.setYear(j.getYear())54 if (i.getSd() == "" and j.getSd() != "" and i.getEd() != "" and compareDates(i.getEd(),j.getEd())==1): #trying to fill the start date,55 #if missing start date, then need to check that end date is the same,56 #if both dates are missing, then entry can not be completed57 i.setSd(j.getSd())58 if (i.getEd() == "" and j.getEd() != "" and i.getSd() != "" and compareDates(i.getSd(),j.getSd())==1): #trying to fill the end date59 #if missing end date, then start date should be checked before completing entry60 i.setEd(j.getEd())61 # get the missing rb from the j.getRb is it's exist62 if (i.getRb() == "" and j.getRb() != "" and ( (i.getEd() != "" and compareDates(i.getEd(),j.getEd())==1)63 or (i.getSd() != "" and compareDates(i.getSd(),j.getSd())==1) ) ):64 #before completing the Rb entry, need to check the start or end date, to make sure we are dealing with same entries65 #note: no two cars with same Cl and same start date and end date are not duplicates66 i.setRb(j.getRb())67 if (i.getId() == ""):68 countList[3] = 1 #countList[3] states wether id is missing in the given entry69 #if missing and before filling it, need to check that the cl and start date and end date are the same for this person70 if(j.getId() != "" and i.getCl().upper() == j.getCl().upper() and i.getEd() != "" and compareDates(i.getEd(),j.getEd())==171 and i.getSd() != "" and compareDates(i.getSd(),j.getSd())==1):72 i.setId(j.getId())73 if (i.getName() == ""):74 countList[2] = 1 #countList[2] states wether name is missing in the given entry75 #if name is missing, check same id ( as cl is already checked) before filling,smae concept is used for Dob and mobile76 if(j.getName() != "" and (i.getId()==j.getId())):77 i.setName(j.getName())78 # get the missing id from the j.getId if it's exist79 if (i.getDob() == ""):80 countList[4] = 1 #countList[4] states wether Dob is missing in the given entry81 if(j.getDob() != "" and (i.getId()==j.getId())):82 i.setDob(j.getDob())83 # get the missing mobile from the j.getMobile if it's exist84 if (i.getMobile() == ""):85 countList[5] = 1 #countList[5] states wether id is missing in the given entry86 if(j.getMobile() != "" and (i.getId() == j.getId())):87 i.setMobile(j.getMobile())88 else:89 if (i.getCm() == ""):90 countList[7] = 191 if (i.getYear() == ""):92 countList[9] = 193 if (i.getId() == ""):94 countList[3] = 195 if (i.getName() == ""):96 countList[2] = 197 if (i.getDob() == ""):98 countList[4] = 199 if (i.getMobile() == ""):100 countList[5] = 1101 countList[8] = 1 #countList[8] states wether cl is missing in the given entry102 # now if there are still missing fields then move that element with missing fields into a list called missingList103 if (i.getCl() == "" or i.getId() == "" or i.getName() == "" or i.getDob() == "" or i.getMobile() == "" or i.getCm() == "" or i.getYear() == ""104 or i.getSd() == "" or i.getEd() == "" or i.getRb() == ""):105 if(i.getId() == "" or i.getName() == "" or i.getDob() == "" or i.getMobile() == ""):106 countList[6] = 1 #countList[6] states wether the personal information in this entry can't be recovered107 missingList.append(i)108 for k in range(0,10):109 printList2[k] += countList[k]110 # if the current entry dosn't have any missing fields then mve it into a list called completeList111 else:112 completeList.append(i)113 for k in range(0, 10):114 printList1[k] += countList[k]115 printList2[0] = calcNumOfDuplicates(list)116 #moving all not comlete entries to a new text file called(âCarRentalMissing.txtâ)117 f=open("CarRentalMissing.txt","w")118 for i in missingList:119 f.write(str(i.printFormatedInfo()))120 f.write("\n")121 f.close()122 # moving all comlete entries to a new text file called(âCarRentalCompleted.txtâ123 f=open("CarRentalCompleted.txt","w")124 for i in completeList:125 f.write(str(i.printFormatedInfo()))126 f.write("\n")127 f.close()128 l = removeDuplicate(completeList)129 completeList = l[0]130 printList1[0] = l[1]131 #printSummary(printList1, printList2)132 return [completeList,printList1,printList2]133def printSummary(printList1,printList2):134 #printing summary before recovering, requires printing the summation of printList1[i]+printList2[i] in most cases135 print("Summary of data missing in the database:")136 print("Number of duplicate entries in the database = " , printList2[0] )137 print("Number of entries with wrong date format in the database = " , (printList1[1] + printList2[1]))138 print("Number of entries where names are dropped from the database = " ,(printList1[2] + printList2[2]))139 print("Number of entries where Ids are dropped from the database = " , (printList1[3] + printList2[3]))140 print("Number of entries where dob are dropped from the database = ", (printList1[4] + printList2[4]))141 print("Number of entries where mobile numbers are dropped from the database = " , (printList1[5] + printList2[5]))142 print("Number of entries where personal entry can not be completed = " , printList2[6])143 print("Number of entries where car make is dropped from the database = " , (printList1[7] + printList2[7]))144 print("Number of entries where car Ids are dropped from the database = ", (printList2[8]))145 print("Number of entries where car models (year) are dropped from the database = " , (printList1[9] + printList2[9]))146 print("")147 #printing summary after recovery, requires printing the printList1 elements148 print("Summary of data recovered from the database:")149 print("Number of duplicate entries removed from the new database = " , printList1[0])150 print("Number of entries with wrong date format fixed in the new database = " , printList1[1])151 print("Number of entries with names recovered in the new database = " , printList1[2])152 print("Number of entries with Ids recovered in the new database = " , printList1[3])153 print("Number of entries with dob recovered in the new database = " , printList1[4])154 print("Number of entries with mobile numbers recovered in the new database = " , printList1[5])155 print("Number of entries with car make recovered in the new database = " , printList1[7])156 print("Number of entries with car models (year) recovered in the new database = " , printList1[9])157#This function will encounter the number of duplicates in the whole database158def calcNumOfDuplicates(list):159 # this list will be a flag to help as know wether this entry is encountered as a duplicates or not160 # so we have initailzed it with zeros161 flagList = []162 for i in range(len(list)):163 flagList.append(0)164 # sum variable will contains the number of duplicates in the whole database165 sum = 0166 for i in range(len(list)):167 # if this entry is considered as a duplicate of anther antry or it's cl is not exist or bot the start and end dats are not exist168 # then we can't know if it have a duplicates or not so continue looping169 if(flagList[i]==0 and ( list[i].getCl()=="" or (list[i].getSd()=="" and list[i].getEd()=="") ) ):170 continue171 # this loop will check the duplicate of the current entry starting from the next of this current entry172 for j in range(i+1,len(list)):173 # if this entry is not a duplicate of another entry , and the cars ids are identical and some of the start or end dates174 # are identical and not empty then this entry is a duplicate of the current entry175 if(flagList[j]==0 and list[i].getCl()==list[j].getCl() and176 ((list[i].getSd()!="" and list[i].getSd()==list[j].getSd()) or (list[i].getEd()!="" and list[i].getEd()==list[j].getEd())) ):177 sum += 1178 flagList[j] = 1179 return sum180# function to remove the duplicates from the completed database181def removeDuplicate(list):182 i=0183 sum=0184 while (i < len(list)): # loops through the list185 j=i+1186 # loops through the list starting from the first element in the list after the element obtained from the first loop187 while (j < len(list)):188 #if the ids are idenetical then cheack the other field and if they are all identical then remove the second element189 if (list[i].getCl() == list[j].getCl() and compareDates(list[i].getSd(),list[j].getSd())==1 and compareDates(list[i].getEd(),list[j].getEd())==1 and190 list[i].getName().lower() == list[j].getName().lower() and compareDates(list[j].getDob(),list[i].getDob()) ==1191 and list[i].getMobile() == list[j].getMobile() and list[i].getCm().lower() == list[j].getCm().lower()192 and list[i].getYear() == list[j].getYear() and list[i].getRb() == list[j].getRb()):193 sum += 1194 list.pop(j)195 j-=1196 j+=1197 i+=1198 return [list , sum ]199def compareDates(date1, date2):200 # if the date has the format of "/digit/" or "-digit-" it should be modified201 object1 = re.search(r"[-/][0-9]*[-/]", date1, re.M | re.S)202 if object1:203 # the replace string is the monthName element indexed by the digit204 replaceString = monthName[int(object1.group()[1:len(object1.group()) - 1]) - 1]205 date1 = re.sub(r"[-/][0-9]*[-/]", " " + replaceString + " ", date1)206 object2 = re.search(r"[-/][0-9]*[-/]", date2, re.M | re.S)207 if object2:208 # the replace string is the monthName element indexed by the digit209 replaceString = monthName[int(object2.group()[1:len(object2.group()) - 1]) - 1]210 date2 = re.sub(r"[-/][0-9]*[-/]", " " + replaceString + " ", date2)211 date1 = datetime.datetime.strptime(date1,"%d %B %Y")212 # we have created a date object to comaper the dates , because maybe date1 = 1 May 2020 and date2 = 01 May 2020213 # then comparing them as string will yield to be not identical , so using date objects will solve the problem214 date2 = datetime.datetime.strptime(date2,"%d %B %Y")215 if (date1 == date2):216 return 1217 else:...
initialize.py
Source:initialize.py
1'''2This module will read3Created on 19 Jun 20174@author: Amaurys Ãvila Ibarra5'''6from configparser import ConfigParser, ExtendedInterpolation7import os, errno, stat8from shutil import copy29__config_file = "%s/.budeAlaScan.ini" % os.path.expanduser("~")10# Ini file sections11__exe_sect = 'Executables'12__dir_sect = 'Directories'13__names_sect = 'File Names'14__general_sect = 'General'15# Ini file General options.16__gen_max_auto_num_opt = "MaxAutoNumber"17__gen_max_auto_num_val = '20'18# ini file dir options19__dir_wrk_opt = "Work"20__dir_wrk_val = "%s/budeAlaScan" % (os.path.expanduser("~"))21__dir_scan_opt = "Scan"22__dir_scan_val = "alaScan"23__dir_blibs_opt = "BudeLibs"24__dir_blibs_val = "libs"25__dir_rslt_opt = "BudeResults"26__dir_rslt_val = "results"27__dir_src_opt = "PdbSources"28__dir_src_val = "sources"29__dir_seq_opt = "BudeSeqs"30__dir_seq_val = "budeSeqs"31__dir_chi_opt = "Chimera"32__dir_chi_val = "chimeraScripts"33__dir_l_src_opt = "LongPdbSources"34__dir_l_src_val = "${%s}/${%s}" % (__dir_scan_opt, __dir_src_opt)35__dir_l_seq_opt = "LongBudeSeqs"36__dir_l_seq_val = "${%s}/${%s}" % (__dir_scan_opt, __dir_seq_opt)37__dir_l_blibs_opt = "LongBudeLibs"38__dir_l_blibs_val = "${%s}/${%s}" % (__dir_scan_opt, __dir_blibs_opt)39__dir_l_rslt_opt = "LongResults"40__dir_l_rslt_val = "${%s}/${%s}" % (__dir_scan_opt, __dir_rslt_opt)41__dir_l_chi_opt = "LongChimera"42__dir_l_chi_val = "${%s}/${%s}" % (__dir_scan_opt, __dir_chi_opt)43__dir_cpp_opt = "CppCode"44__dir_cpp_val = "cppCode"45__dir_bude_opt = "BUDE"46__dir_bude_val = "${%s}/%s/%s/bin" % (__dir_cpp_opt, "BUDE-1.2.9", "build")47__dir_getsd_opt = "GetSD"48__dir_getsd_val = "${%s}/%s" % (__dir_cpp_opt, "getSD")49__dir_colsd_opt = "ColourBySD"50__dir_colsd_val = "${%s}/%s" % (__dir_cpp_opt, "colourBySD")51__dir_msrc_opt = "MutationSources"52__dir_mrslt_opt = "mut_rslt"53# Ini file executable options54__exe_bude_opt = "BUDE"55__exe_bude_val = "budeScan"56__exe_bseq_opt = "BudeSeq"57__exe_bseq_val = "bude_sequence"58__exe_colsd_opt = "ColouBySD"59__exe_colsd_val = "colourBySD"60__exe_getsd_opt = "GetSD"61__exe_getsd_val = "getSD"62__exe_fbude_opt = "FullBude"63__exe_fbude_val = "${%s:%s}/${%s}" % (__dir_sect, __dir_bude_opt, __exe_bude_opt)64__exe_fbseq_opt = "FullBseq"65__exe_fbseq_val = "${%s:%s}/${%s}" % (__dir_sect, __dir_bude_opt, __exe_bseq_opt)66__exe_fcolsd_opt = "FullColourSD"67__exe_fcolsd_val = "${%s:%s}/${%s}" % (__dir_sect, __dir_colsd_opt, __exe_colsd_opt)68__exe_fgetsd_opt = "FullGetSD"69__exe_fgetsd_val = "${%s:%s}/${%s}" % (__dir_sect, __dir_getsd_opt, __exe_getsd_opt)70# Ini file names options71__names_b_bmc_opt = "BudeBMC"72__names_b_bmc_val = "budeAlaScan.bemc"73__names_b_ctrl_opt = "BudeCtrl"74__names_b_ctrl_val = "alaScan.bctl"75__names_b_gen_zero_opt = "BudeGenZero"76__names_b_gen_zero_val = "zeroGeneration.bzgn"77__names_b_ff_opt = "BudeForcefield"78__names_b_ff_val = "forcefield.bhff"79__names_b_transf_opt = "BudeTransformations"80__names_b_transf_val = "transformations.bltr"81__names_b_rot_choice_opt = "BudeRotamerChoice"82__names_b_rot_choice_val = "rotamer_choice.brch"83__names_b_rot_lib_opt = "BudeRotamerLibrary"84__names_b_rot_lib_val = "rotamer_library.brot"85__names_ligs_list_opt = "LigandsList"86__names_ligs_list_val = "myLigands.list"87__names_rcpts_list_opt = "ReceptorsList"88__names_rcpts_list_val = "myReceptors.list"89__names_rslt_lig_list_opt = "LigandResultsList"90__names_rslt_lig_list_val = "resultsLigands.list"91__names_rslt_rcpt_list_opt = "ReceptorResultsList"92__names_rslt_rcpt_list_val = "resultsReceptors.list"93__names_lig_sd_opt = "LigandsAvgSD"94__names_lig_sd_val = "ligandsAvgSD.bals"95__names_rcpt_sd_opt = "ReceptorsAvgSD"96__names_rcpt_sd_val = "receptorsAvgSD.bals"97__config_sections = {98 __general_sect:99 {100 __gen_max_auto_num_opt: __gen_max_auto_num_val101 }102 ,103 __exe_sect:104 {105 __exe_bude_opt: __exe_bude_val,106 __exe_bseq_opt: __exe_bseq_val,107 __exe_colsd_opt: __exe_colsd_val,108 __exe_getsd_opt: __exe_getsd_val,109 __exe_fbude_opt: __exe_fbude_val,110 __exe_fbseq_opt: __exe_fbseq_val,111 __exe_fcolsd_opt: __exe_fcolsd_val,112 __exe_fgetsd_opt: __exe_fgetsd_val113 }114 ,115 __dir_sect:116 {117 __dir_wrk_opt: __dir_wrk_val,118 __dir_scan_opt: __dir_scan_val,119 __dir_blibs_opt: __dir_blibs_val,120 __dir_rslt_opt: __dir_rslt_val,121 __dir_src_opt: __dir_src_val,122 __dir_seq_opt: __dir_seq_val,123 __dir_chi_opt: __dir_chi_val,124 __dir_l_src_opt: __dir_l_src_val,125 __dir_l_seq_opt: __dir_l_seq_val,126 __dir_l_blibs_opt: __dir_l_blibs_val,127 __dir_l_rslt_opt: __dir_l_rslt_val,128 __dir_l_chi_opt: __dir_l_chi_val,129 __dir_cpp_opt: __dir_cpp_val,130 __dir_bude_opt: __dir_bude_val,131 __dir_getsd_opt: __dir_getsd_val,132 __dir_colsd_opt: __dir_colsd_val133 }134 ,135 __names_sect:136 {137 __names_b_bmc_opt: __names_b_bmc_val,138 __names_b_ctrl_opt: __names_b_ctrl_val,139 __names_b_gen_zero_opt: __names_b_gen_zero_val,140 __names_b_ff_opt: __names_b_ff_val,141 __names_b_transf_opt: __names_b_transf_val,142 __names_b_rot_choice_opt: __names_b_rot_choice_val,143 __names_b_rot_lib_opt: __names_b_rot_lib_val,144 __names_ligs_list_opt: __names_ligs_list_val,145 __names_rcpts_list_opt: __names_rcpts_list_val,146 __names_rslt_lig_list_opt: __names_rslt_lig_list_val,147 __names_rslt_rcpt_list_opt: __names_rslt_rcpt_list_val,148 __names_lig_sd_opt: __names_lig_sd_val,149 __names_rcpt_sd_opt: __names_rcpt_sd_val150 }151 }152def __create_cfg():153 '''154 Create configuration by adding all sections and options to it.155 '''156 my_cfg = ConfigParser(interpolation=ExtendedInterpolation())157 my_cfg.optionxform = str158 for a_section in __config_sections:159 my_cfg.add_section(a_section)160 for an_option in __config_sections[a_section]:161 my_cfg.set(a_section, an_option, __config_sections[a_section][an_option])162 return my_cfg163def __read_cfg():164 '''165 Read config file, add missing configuration parameters and update166 config file if any section or option was added. 167 '''168 my_cfg = ConfigParser(interpolation=ExtendedInterpolation())169 my_cfg.optionxform = str170 my_cfg.read(__config_file, encoding='utf-8')171 if __did_add_missing_conf(my_cfg):172 copy2(__config_file, (__config_file + ".backup"))173 cfg = open(__config_file, 'w')174 my_cfg.write(cfg)175 cfg.close()176 return my_cfg177def __did_add_missing_conf(my_cfg):178 '''179 Add missing section or option and return true if any change is made.180 '''181 addition_was_made = False182 for a_section in __config_sections:183 if not my_cfg.has_section(a_section):184 my_cfg.add_section(a_section)185 addition_was_made = True186 for an_option in __config_sections[a_section]:187 if not my_cfg.has_option(a_section, an_option):188 my_cfg.set(a_section, an_option, __config_sections[a_section][an_option])189 addition_was_made = True190 return addition_was_made191def create_configuration():192 '''193 Creates configuration or reads it from file.194 '''195 try:196 flags = os.O_EXCL | os.O_WRONLY | os.O_CREAT197 mode = stat.S_IREAD | stat.S_IWRITE | stat.S_IRGRP | stat.S_IROTH198 ini_file = os.open(__config_file, flags, mode)199 os.close(ini_file)200 except OSError as e:201 if e.errno == errno.EEXIST:202 my_config = __read_cfg()203 else:204 raise205 else:206 cfg = open(__config_file, 'w')207 my_config = __create_cfg()208 my_config.write(cfg)209 cfg.close()...
delete.py
Source:delete.py
1import argparse2import time3import requests4def getSD(SDtoken, urlpart):5 url = 'https://api.serverdensity.io{}'.format(urlpart)6 r = requests.get(url, params={'token': SDtoken})7 j = r.json()8 time.sleep(0.1)9 return j10def delete(sdid, SDtoken, urlpart):11 url = 'https://api.serverdensity.io{0}/{sdid}'.format(urlpart, sdid=sdid)12 r = requests.delete(url, params={'token': SDtoken})13 time.sleep(0.1)14 return r.status_code15def delete_list(items, SDtoken, urlpart):16 for item in items:17 if '@' in str(item.get('login')):18 delete(item['_id'], SDtoken, urlpart)19 print "Item with id: {} has been deleted".format(item['_id'])20 else:21 print "Saving users that don't have an email as username"22if __name__ == '__main__':23 parser = argparse.ArgumentParser()24 parser.add_argument("SDtoken",25 help="the api token you get from Server Density")26 args = parser.parse_args()27 SDtoken = args.SDtoken28 users = getSD(SDtoken, '/users/users')29 devices = getSD(SDtoken, '/inventory/devices')30 services = getSD(SDtoken, '/inventory/services')31 tags = getSD(SDtoken, '/inventory/tags')32 notifications = getSD(SDtoken, '/notifications/recipients')33 delete_list(users, SDtoken, '/users/users')34 delete_list(devices, SDtoken, '/inventory/devices')35 delete_list(services, SDtoken, '/inventory/services')36 delete_list(tags, SDtoken, '/inventory/tags')...
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