diff --git a/DESCRIPTION b/DESCRIPTION
index 34de69b..7e9e8b5 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,20 +1,20 @@
 Package: SkeletonPredictionStudy
 Type: Package
 Title: A Skeleton for Prediction Development Studies that use the PatientLevelPrediction Framework
-Version: 1.0.5
+Version: 1.0.7
 Author: Jenna Reps [aut, cre]
 Maintainer: Jenna M Reps <reps@ohdsi.org>
 Description: A skeleton package to be used as a starting point when implementing patient-level prediction development studies.
 Depends:
     R(>= 3.6.0)
 Imports:
-    CohortGenerator (>= 0.3.0),
-    DatabaseConnector (>= 5.0.0),
+    CohortGenerator (>= 0.6.0),
+    DatabaseConnector (>= 5.0.4),
     dplyr,
     jsonlite,
     knitr,
     OhdsiSharing,
-    PatientLevelPrediction (>= 5.0.2),
+    PatientLevelPrediction (>= 5.0.6),
     ParallelLogger,
     rlang,
     rmarkdown,
@@ -26,10 +26,10 @@ Suggests:
     Hydra
 Remotes:
     ohdsi/CirceR,
-    ohdsi/CohortGenerator@from_package,
+    ohdsi/CohortGenerator,
     ohdsi/Hydra,
     ohdsi/OhdsiSharing,
-    ohdsi/PatientLevelPrediction@issue242
+    ohdsi/PatientLevelPrediction
 License: Apache License 2.0
 RoxygenNote: 7.1.1
 SkeletonNote: 1.0.0
diff --git a/HydraConfig.json b/HydraConfig.json
index fd57aa7..a139004 100644
--- a/HydraConfig.json
+++ b/HydraConfig.json
@@ -13,9 +13,9 @@
   },{
     "type": "jsonArrayToCsv",
     "input": "cohortDefinitions",
-    "mapping": [{"source": "id", "target": "webApiCohortId"},
-                {"source": "id", "target": "cohortId"},
-                {"source": "name", "target": "cohortName"}],
+    "mapping": [{"source": "id", "target": "web_api_cohort_id"},
+                {"source": "id", "target": "cohort_id"},
+                {"source": "name", "target": "cohort_name"}],
     "output": "inst/Cohorts.csv"
   },{
     "type": "jsonArrayToJson",
diff --git a/NEWS.md b/NEWS.md
index 0191cfc..8dc25a2 100644
--- a/NEWS.md
+++ b/NEWS.md
@@ -1,3 +1,8 @@
+SkeletonPredictionStudy 1.0.7
+======================
+  - Pulled in bug fixes from Henrik
+  - Renamed analysis to analyses to be consistent with PLP
+  
 SkeletonPredictionStudy 1.0.2
 ======================
   - Cleaned r package check 
diff --git a/R/BackwardsComp.R b/R/BackwardsComp.R
index 4a849fb..931985d 100644
--- a/R/BackwardsComp.R
+++ b/R/BackwardsComp.R
@@ -15,6 +15,20 @@ backwards <- function(predictionAnalysisListFile){
     )
   }
   
+  #create split setting
+  if(json$runPlpArgs$testSplit %in% c('subject', 'time', 'stratified')){
+    splitType <- json$runPlpArgs$testSplit
+  }else{
+    splitType <- 'subject'
+  }
+  
+  splitSettings <- PatientLevelPrediction::createDefaultSplitSetting(
+    testFraction = json$runPlpArgs$testFraction, 
+    splitSeed = json$runPlpArgs$splitSeed, 
+    nfold = json$runPlpArgs$nfold, 
+    type = splitType
+  )
+  
   # this can be multiple?
   ##covariateSettingList <- lapply(json$covariateSettings, function(x) do.call(FeatureExtraction::createCovariateSettings, x))
   covariateSettingList <- json$covariateSettings
@@ -66,6 +80,7 @@ backwards <- function(predictionAnalysisListFile){
               featureEngineeringSettings = PatientLevelPrediction::createFeatureEngineeringSettings(),
               sampleSettings = PatientLevelPrediction::createSampleSettings(), 
               preprocessSettings = preprocessSettings, 
+              splitSettings =splitSettings,
               modelSettings = mod, 
               runCovariateSummary = T
               )
@@ -81,20 +96,6 @@ backwards <- function(predictionAnalysisListFile){
   # create modelDesigns:
   json$analyses <- modelDesign
   
-  #create split setting
-  if(json$runPlpArgs$testSplit %in% c('subject', 'time', 'stratified')){
-    splitType <- json$runPlpArgs$testSplit
-  }else{
-    splitType <- 'subject'
-  }
-  
-  json$splitSettings <- PatientLevelPrediction::createDefaultSplitSetting(
-    testFraction = json$runPlpArgs$testFraction, 
-    splitSeed = json$runPlpArgs$splitSeed, 
-    nfold = json$runPlpArgs$nfold, 
-    type = splitType
-    )
-  
   return(json)
 }
 
diff --git a/R/CreateAllCohorts.R b/R/CreateAllCohorts.R
index 4ec479a..d72db69 100644
--- a/R/CreateAllCohorts.R
+++ b/R/CreateAllCohorts.R
@@ -54,19 +54,14 @@ createCohorts <- function(
   utils::write.csv(counts, file.path(outputFolder, "CohortCounts.csv"), row.names = FALSE)
 }
 
-addCohortNames <- function(data, IdColumnName = "cohortId", nameColumnName = "cohortName") {
+addCohortNames <- function(data) {
   pathToCsv <- system.file("Cohorts.csv", package = "SkeletonPredictionStudy")
-
+  
   idToName <- utils::read.csv(pathToCsv)
   idToName <- idToName[order(idToName$cohortId), ]
   idToName <- idToName[!duplicated(idToName$cohortId), ]
-  names(idToName)[1] <- IdColumnName
-  names(idToName)[2] <- nameColumnName
+  
   data <- merge(data, idToName, all.x = TRUE)
-  # Change order of columns:
-  idCol <- which(colnames(data) == IdColumnName)
-  if (idCol < ncol(data) - 1) {
-    data <- data[, c(1:idCol, ncol(data) , (idCol + 1):(ncol(data) - 1))]
-  }
+  
   return(data)
 }
\ No newline at end of file
diff --git a/R/Main.R b/R/Main.R
index 86d9c9e..c26eaaf 100644
--- a/R/Main.R
+++ b/R/Main.R
@@ -25,9 +25,6 @@
 #'                             performance.
 #' @param createProtocol       Creates a protocol based on the analyses specification                             
 #' @param createCohorts        Create the cohortTable table with the target population and outcome cohorts?
-#' @param runDiagnostic        Runs a diagnostic of the T, O and tar settings for the cdmDatabaseSchema - can be used to check whether to change 
-#'                             settings or whether the prediction may not do well.  
-#' @param viewDiagnostic       Opens a shiny app with the diagnostic results (run after runDiagnostic completes)                              
 #' @param runAnalyses          Run the model development
 #' @param createValidationPackage  Create a package for sharing the models 
 #' @param useHydra             Whether to use Hydra to create the validation package (requires hydra to be installed) or download the master version of the skeleton (requires internet access)
@@ -70,8 +67,6 @@
 #'         outputFolder = "c:/temp/study_results", 
 #'         createProtocol = T,
 #'         createCohorts = T,
-#'         runDiagnostic = F,
-#'         viewDiagnostic = F,
 #'         runAnalyses = T,
 #'         createValidationPackage = T,
 #'         useHydra = F,
@@ -90,8 +85,6 @@ execute <- function(
   outputFolder,
   createProtocol = F,
   createCohorts = F,
-  runDiagnostic = F,
-  viewDiagnostic = F,
   runAnalyses = F,
   createValidationPackage = F,
   useHydra = F,
@@ -126,8 +119,8 @@ execute <- function(
     )
   }
   
-  if(runAnalyses || onlyFetchData || runDiagnostic){
-    if(onlyFetchData || (runDiagnostic && !runAnalyses)) {
+  if(runAnalyses || onlyFetchData){
+    if(onlyFetchData) {
       ParallelLogger::logInfo("Only fetching data and not running predictions")
     } else {
       ParallelLogger::logInfo("Running predictions")
@@ -175,8 +168,7 @@ execute <- function(
       list(
         databaseDetails = databaseDetails,
         modelDesignList = predictionAnalysisList$analyses,
-        onlyFetchData =  onlyFetchData || (runDiagnostic && !runAnalyses),
-        splitSettings = predictionAnalysisList$splitSettings,
+        onlyFetchData =  onlyFetchData,
         cohortDefinitions = predictionAnalysisList$cohortDefinitions,
         logSettings = logSettings,
         saveDirectory = outputFolder
@@ -184,80 +176,6 @@ execute <- function(
     )
   }
   
-  if(runDiagnostic){
-    ParallelLogger::logInfo(paste0("Creating diagnostic results for ",databaseDetails$cdmDatabaseName))
-    
-    settings <- utils::read.csv(file.path(outputFolder, 'settings.csv'))
-    
-    settings <- settings %>% 
-      dplyr::select(.data$targetName, .data$outcomeName, .data$dataLocation) %>% 
-      dplyr::mutate(target = paste0(.data$targetName, '-' , .data$dataLocation))
-    
-    length(unique(settings$target))
-    
-    # run diagnostic
-    for(i in 1:length(unique(settings$target))){
-      
-      setOfInt <- settings %>% dplyr::filter(.data$target  == unique(settings$target)[i])
-      
-      ParallelLogger::logInfo(paste0("Target Cohort: ", unique(setOfInt$targetName), ' generating'))
-      
-      diagnosticData <- PatientLevelPrediction::loadPlpData(file.path(outputFolder, setOfInt$dataLocation[1]))
-      diagnosticData$cohorts$cohortId <- i*100000+diagnosticData$cohorts$cohortId
-      
-      diag <- tryCatch(
-        {
-          PatientLevelPrediction::diagnostic( 
-            plpData = diagnosticData,
-            cdmDatabaseName = databaseDetails$cdmDatabaseName,
-            cohortName = unique(setOfInt$target), 
-            outcomeNames = unique(setOfInt$outcomeName), 
-            databaseDetails = NULL,
-            populationSettings = PatientLevelPrediction::createStudyPopulationSettings(
-              includeAllOutcomes = F, 
-              firstExposureOnly = F, 
-              washoutPeriod = 0, 
-              requireTimeAtRisk = F, 
-              removeSubjectsWithPriorOutcome = F, 
-              riskWindowStart = 0, 
-              riskWindowEnd = 9999
-            ),
-            outputFolder = file.path(outputFolder, 'diagnostics'), 
-            minCellCount = minCellCount
-          )
-        },
-        error = function(err) {
-          # error handler picks up where error was generated
-          ParallelLogger::logError(paste("Diagnostic error:  ",err))
-          return(NULL)
-          
-        }
-      )
-    }
-    
-    
-  }
-  
-  if(viewDiagnostic){
-    ParallelLogger::logInfo(paste0("Loading diagnostic shiny app"))
-    
-    checkDiagnosticResults <- dir.exists(file.path(outputFolder, 'diagnostics'))
-    checkShinyViewer <- dir.exists(system.file("shiny", "DiagnosticsExplorer", package = "PatientLevelPrediction"))
-    if(!checkDiagnosticResults){
-      warning('No diagnosstic results found, please execute with runDiagnostic first')
-    } else if(!checkShinyViewer){
-      warning('No DiagnosticsExplorer shiny app found in your PatientLevelPrediction library - try updating PatientLevelPrediction')
-    } else{
-      shinyDirectory <- system.file("shiny", "DiagnosticsExplorer", package = "PatientLevelPrediction")
-      shinySettings <- list(dataFolder = file.path(outputFolder, 'diagnostics'))
-      .GlobalEnv$shinySettings <- shinySettings
-      on.exit(rm(shinySettings, envir = .GlobalEnv))
-      shiny::runApp(shinyDirectory)
-    }
-    
-  }
-  
-  
   if (packageResults) {
     ensure_installed("OhdsiSharing")
     ParallelLogger::logInfo("Packaging results")
diff --git a/extras/PackageMaintenance.R b/extras/PackageMaintenance.R
index 9478165..4840076 100644
--- a/extras/PackageMaintenance.R
+++ b/extras/PackageMaintenance.R
@@ -44,3 +44,8 @@ rmarkdown::render("vignettes/CreatingStudyPackageInR.Rmd",
 # Store environment in which the study was executed -----------------------
 OhdsiRTools::insertEnvironmentSnapshotInPackage("SkeletonPredictionStudy")
 
+reticulate::conda_export(
+  envname = 'r-reticulate', 
+  file = "environment.yml", 
+  json = F
+)
diff --git a/extras/createDevelopmentPackageExample.R b/extras/createDevelopmentPackageExample.R
index 89419d6..63cc5e2 100644
--- a/extras/createDevelopmentPackageExample.R
+++ b/extras/createDevelopmentPackageExample.R
@@ -1,5 +1,5 @@
 source(file.path(getwd(),'extras/createDevelopmentPackageFunctions.R'))
-#devtools::source_url("https://raw.github.com/ohdsi/SkeletonPredictionStudy/issue242/extras/createDevelopmentPackageFunctions.R")
+#devtools::source_url("https://raw.github.com/ohdsi/SkeletonPredictionStudy/main/extras/createDevelopmentPackageFunctions.R")
 
 packageName <- 'ExamplePrediction'
 baseUrl <- 'https://api.ohdsi.org/WebAPI/'
@@ -26,6 +26,7 @@ modelDesign1 <- PatientLevelPrediction::createModelDesign(
     minFraction = 1/10000, 
     normalize = T
     ), 
+  splitSettings = PatientLevelPrediction::createDefaultSplitSetting(),
   modelSettings = PatientLevelPrediction::setLassoLogisticRegression(), 
   runCovariateSummary = T
   )
@@ -74,6 +75,7 @@ modelDesign2 <- PatientLevelPrediction::createModelDesign(
     minFraction = 1/10000, 
     normalize = T
   ), 
+  splitSettings = PatientLevelPrediction::createDefaultSplitSetting(),
   modelSettings = PatientLevelPrediction::setLassoLogisticRegression(), 
   runCovariateSummary = T
 )
@@ -87,7 +89,6 @@ jsonList <- createDevelopmentSkeletonSettings(
   packageName = packageName,
   organizationName = "OHDSI",
   modelDesignList = modelDesignList,
-  splitSettings = PatientLevelPrediction::createDefaultSplitSetting(),
   baseUrl = baseUrl,
   saveDirectory = NULL
   )
@@ -95,9 +96,8 @@ jsonList <- createDevelopmentSkeletonSettings(
 
 createDevelopmentPackage(
   jsonList = jsonList, 
-  baseUrl = baseUrl,
   #skeletonLocation = 'D:/GitHub/SkeletonPredictionStudy', 
-  skeletonUrl = "https://github.com/ohdsi/SkeletonPredictionStudy/archive/master.zip",
+  skeletonUrl = "https://github.com/ohdsi/SkeletonPredictionStudy/archive/main.zip",
   outputLocation = '/Users/jreps/Documents/testing2',
   packageName = packageName
   )
diff --git a/extras/createDevelopmentPackageFunctions.R b/extras/createDevelopmentPackageFunctions.R
index ad5f210..f74f0a9 100644
--- a/extras/createDevelopmentPackageFunctions.R
+++ b/extras/createDevelopmentPackageFunctions.R
@@ -3,7 +3,6 @@ createDevelopmentSkeletonSettings <- function(
   skeletonVersion = 'v1.0.0',
   organizationName = "your name",
   modelDesignList = list(),
-  splitSettings = PatientLevelPrediction::createDefaultSplitSetting(),
   baseUrl,
   saveDirectory = NULL
 ){
@@ -21,44 +20,30 @@ createDevelopmentSkeletonSettings <- function(
     baseUrl = baseUrl
   )
   
-  jsonSettings <- PatientLevelPrediction::savePlpAnalysesJson(
-    modelDesignList = modelDesignList, 
-    saveDirectory = NULL
-  )
-  
+  jsonSettings <- list()
   jsonSettings$skeletonType <-  "PatientLevelPredictionStudy"
   jsonSettings$organizationName <- organizationName
   jsonSettings$skeletonVersion <- skeletonVersion
   jsonSettings$packageName <- packageName 
   
-  splitSettings$attributes <- attributes(splitSettings)
-  class(splitSettings) <- 'list'
-  jsonSettings$splitSettings <- splitSettings
+  jsonSettings$analyses <- modelDesignList
   
   jsonSettings$cohortDefinitions <- cohortDefinitions
   
   if(!is.null(saveDirectory)){
     
-    #jsonSettings <- jsonlite::serializeJSON(jsonSettings, digits = 23)
-    jsonSettings <- jsonlite::toJSON(
-      x = jsonSettings, 
-      pretty = T, 
-      digits = 23, 
-      auto_unbox=TRUE, 
-      null = "null",
-      keep_vec_names=TRUE # fixing issue with jsonlite dropping vector names
-    )
-      
     fileName <- file.path(saveDirectory, 'predictionAnalysisList.json')
     if(!dir.exists(saveDirectory)){
       ParallelLogger::logInfo('Creating saveDirectory')
       dir.create(saveDirectory, recursive = T)
     }
     ParallelLogger::logInfo('Saving jsonsettings')
-    write(
-      x = jsonSettings,
-      file = fileName
+    
+    ParallelLogger::saveSettingsToJson(
+      object = jsonSettings,
+      fileName = fileName
       )
+    
   }
   
   return(invisible(jsonSettings))
@@ -93,17 +78,16 @@ getCohortDefinitions <- function(
   allIds <- unique(c(componentIds, covariateIds))
   
   ParallelLogger::logInfo('Extracting cohorts using webapi')
-  
-  cohortDefinitions <- list()
-  length(cohortDefinitions) <- length(allIds)
-  for (i in 1:length(allIds)) {
-    ParallelLogger::logInfo(paste("Extracting cohort:", allIds[i]))
-    cohortDefinitions[[i]] <- ROhdsiWebApi::getCohortDefinition(
-      cohortId = allIds[i], 
-      baseUrl = baseUrl
+  # get a data.frame with all the cohorts sql and json 
+  cohortDefinitions <- ROhdsiWebApi::exportCohortDefinitionSet(
+    baseUrl = baseUrl, 
+    cohortIds = allIds, 
+    generateStats = F
     )
-    
-    ParallelLogger::logInfo(paste0('Extracted ', cohortDefinitions[[i]]$name ))
+  
+  for (cn in cohortDefinitions$cohortName) {
+    # add code to print name
+    ParallelLogger::logInfo(paste0('Extracted ', cn ))
   }
   
   return(cohortDefinitions)
@@ -113,7 +97,6 @@ getCohortDefinitions <- function(
 createDevelopmentPackage <- function(
   jsonList = NULL,
   jsonFileLocation = NULL, 
-  baseUrl,
   skeletonLocation,
   skeletonUrl = "https://github.com/ohdsi/SkeletonPredictionStudy/archive/main.zip",
   outputLocation,
@@ -172,11 +155,9 @@ createDevelopmentPackage <- function(
   # download cohorts + create the cohortsToCreate.csv
   saveCohorts(
     packageLocation = packageLocation,
-    analysisList = jsonList,
-    baseUrl = baseUrl
+    analysisList = jsonList
     )
   
-
 }
 
 
@@ -219,23 +200,15 @@ saveAnalysisJson <- function(
   jsonList
   ){
   
-  # convert into lists with attributes in list
-  jsonList$analysis <- PatientLevelPrediction::savePlpAnalysesJson(
-    modelDesignList = jsonList$analysis,
-    saveDirectory = NULL)$analysis
-  
-  jsonObject <- jsonlite::toJSON(
-    x = jsonList, 
-    pretty = T, 
-    digits = 23, 
-    auto_unbox=TRUE, 
-    null = "null",
-    keep_vec_names=TRUE # fixing issue with jsonlite dropping vector names
-  )
-  write(
-    x = jsonObject, 
-    file = file.path(packageLocation, 'inst', 'settings', 'predictionAnalysisList.json'), 
-    append = F
+  cohortDef <- jsonList$cohortDefinitions
+  jsonList$cohortDefinitions <-
+    lapply(1:length(cohortDef$cohortName), function(i)
+      list(name = cohortDef$cohortName[i],
+           id = cohortDef$cohortId[i]))
+    
+  ParallelLogger::saveSettingsToJson(
+    object = jsonList, 
+    fileName = file.path(packageLocation, 'inst', 'settings', 'predictionAnalysisList.json')
     )
   
   return(packageLocation)
@@ -245,23 +218,15 @@ saveAnalysisJson <- function(
 # save json and convert+save sql into inst/cohorts and inst/sql/sql_server
 saveCohorts <- function(
   packageLocation,
-  analysisList,
-  baseUrl
+  analysisList
   ){
   
-
-  details <- lapply(
-    1:length(analysisList$cohortDefinitions), 
-    function(i){
-      c(
-        cohortName = analysisList$cohortDefinitions[[i]]$name,
-        cohortId = analysisList$cohortDefinitions[[i]]$id,
-        webApiCohortId = analysisList$cohortDefinitions[[i]]$id 
+  # had to edit to fix CohortGenerator 0.6.0 error
+  details <- data.frame(
+        cohortName = analysisList$cohortDefinitions$cohortName,
+        cohortId = analysisList$cohortDefinitions$cohortId,
+        webApiCohortId = analysisList$cohortDefinitions$cohortId 
       )
-    }
-  )
-  details <- do.call('rbind', details)
-  details <- as.data.frame(details, stringsAsFactors = F)
 
   write.csv(
     x = details,
@@ -269,6 +234,8 @@ saveCohorts <- function(
     row.names = F
     )
   
+  #CohortGenerator::getCohortDefinitionSet()
+  
   # make sure cohorts and sql/sql_server exist
   if(!dir.exists(file.path(packageLocation, 'inst', 'cohorts'))){
     dir.create(file.path(packageLocation, 'inst', 'cohorts'), recursive = T)
@@ -279,23 +246,27 @@ saveCohorts <- function(
   
   # save the cohorts as json
   lapply(
-    1:length(analysisList$cohortDefinitions), 
+    1:nrow(analysisList$cohortDefinitions), 
     function(i){
-      jsonObject  <- jsonlite::toJSON(analysisList$cohortDefinitions[[i]], digits = 23)
-      write(
-        x = jsonObject,
-        file = file.path(packageLocation, 'inst', 'cohorts', paste0(analysisList$cohortDefinitions[[i]]$id,'.json'))
+      ParallelLogger::saveSettingsToJson(
+        object = analysisList$cohortDefinitions$json[i], 
+        fileName = file.path(
+          packageLocation, 
+          'inst', 
+          'cohorts', 
+          paste0(analysisList$cohortDefinitions$cohortId[i],'.json')
+          )
       )
     }
   )
   
   # save the cohorts as sql
   lapply(
-    1:length(analysisList$cohortDefinitions), 
+    1:nrow(analysisList$cohortDefinitions), 
     function(i){
-      write(
-        x = ROhdsiWebApi::getCohortSql(analysisList$cohortDefinitions[[i]], baseUrl = baseUrl, generateStats = F),
-        file = file.path(packageLocation, 'inst', 'sql', 'sql_server', paste0(analysisList$cohortDefinitions[[i]]$id, '.sql'))
+      SqlRender::writeSql(
+        sql = analysisList$cohortDefinitions$sql[i],
+        targetFile = file.path(packageLocation, 'inst', 'sql', 'sql_server', paste0(analysisList$cohortDefinitions$cohortId[i], '.sql'))
       )
     }
   )
diff --git a/extras/createLockfiles.R b/extras/createLockfiles.R
index 956766c..a8994fa 100644
--- a/extras/createLockfiles.R
+++ b/extras/createLockfiles.R
@@ -15,10 +15,7 @@ OhdsiRTools::createRenvLockFile(rootPackage = "SkeletonPredictionStudy",
                                   "Hydra",
                                   "plotly", 
                                   "pool", 
-                                  "shiny", 
-                                  "shinycssloaders", 
-                                  "shinydashboard", 
-                                  "shinyWidgets"
+                                  "OhdsiShinyModules"
                                 )
                                 )
 
diff --git a/extras/createStudyPackageFromATLASJson.R b/extras/createStudyPackageFromATLASJson.R
new file mode 100644
index 0000000..52f9c24
--- /dev/null
+++ b/extras/createStudyPackageFromATLASJson.R
@@ -0,0 +1,86 @@
+source(file.path(getwd(),'extras/createDevelopmentPackageFunctions.R'))
+source(file.path(getwd(),'R/BackwardsComp.R'))
+
+convertCohortDef <- function(cohortDefinitions){
+  # cohortName, cohortId, json, sql
+  cohortDefinitionsNew <- data.frame(
+    cohortName = unlist(lapply(cohortDefinitions, function(x) x$name)),
+    cohortId = unlist(lapply(cohortDefinitions, function(x) x$id)),
+    json = unlist(lapply(cohortDefinitions, function(x) as.character(ParallelLogger::convertSettingsToJson(x$expression)))),
+    sql = unlist(lapply(cohortDefinitions, function(x){
+      CirceR::buildCohortQuery(
+        as.character(ParallelLogger::convertSettingsToJson(x$expression)), 
+        options = CirceR::createGenerateOptions(
+          generateStats =  F
+        )
+      )
+    }
+    )
+    )
+  )
+  return(cohortDefinitionsNew)
+}
+
+createStudyPackageFromATLASJson <- function(
+  jsonLocation,
+  studyPackageLocation,
+  skeletonLocation = getwd()
+  ){
+  
+  # apply backwards
+  analysisJson <- backwards(jsonLocation)
+  
+  packageName <- analysisJson$packageName
+  studyPackageLocation <- file.path(studyPackageLocation, packageName)
+  
+  # create studyPackageLocation (if empty)
+  if(dir.exists(studyPackageLocation)){
+    stop('Package location exists - please pick a different location or delete existing files')
+  } else{
+    dir.create(studyPackageLocation, recursive = T)
+  }
+  
+  # convert the cohortDefinitions to:
+  # cohortName, cohortId, json, sql
+  analysisJson$cohortDefinitions <- convertCohortDef(
+    analysisJson$cohortDefinitions
+    )
+  
+  # copy the skeleton to studyPackageLocation
+  if(!dir.exists(studyPackageLocation)){
+    dir.create(studyPackageLocation, recursive = T)
+  }
+  # copy the skeleton to the output location
+  file.copy(list.files(skeletonLocation, full.names = TRUE), 
+            to = studyPackageLocation, 
+            recursive = TRUE
+  )
+  
+  # rename 
+  replaceName(
+    packageLocation = studyPackageLocation,
+    packageName = packageName,
+    skeletonType = 'SkeletonPredictionStudy'
+  )
+  
+  # save json fileinto package
+  saveAnalysisJson(
+    packageLocation = studyPackageLocation,
+    jsonList = analysisJson
+  )
+  
+  # download cohorts + create the cohortsToCreate.csv
+  saveCohorts(
+    packageLocation = studyPackageLocation,
+    analysisList = analysisJson
+  )
+  
+  return(studyPackageLocation)
+}
+
+# testing using old json in package
+createStudyPackageFromATLASJson(
+  jsonLocation = file.path(getwd(), 'inst', 'settings', 'predictionAnalysisList_old.json'),
+  studyPackageLocation = file.path('/Users/jreps/Documents/testAtlas'),
+  skeletonLocation = getwd()
+)
diff --git a/pyEnvironment.yml b/pyEnvironment.yml
index 19def23..43138c7 100644
--- a/pyEnvironment.yml
+++ b/pyEnvironment.yml
@@ -1,143 +1,82 @@
 name: r-reticulate
 channels:
-  - sebp
-  - pytorch
   - conda-forge
   - defaults
 dependencies:
-  - absl-py=0.12.0
-  - astor=0.8.1
-  - blas=1.0
-  - ca-certificates=2020.12.5
-  - cached-property=1.5.2
-  - cached_property=1.5.2
-  - cairo=1.16.0
-  - certifi=2020.12.5
-  - cpuonly=1.0
-  - cvxopt=1.2.5
-  - cvxpy=1.0.31
-  - cvxpy-base=1.0.31
-  - dataclasses=0.8
-  - dill=0.3.3
-  - ecos=2.0.7.post1
-  - expat=2.3.0
-  - fastcache=1.1.0
-  - fontconfig=2.13.1
-  - freetype=2.10.4
-  - fribidi=1.0.10
-  - future=0.18.2
-  - gast=0.4.0
-  - getopt-win32=0.1
-  - gettext=0.19.8.1
-  - glpk=4.65
-  - google-pasta=0.2.0
-  - graphviz=2.47.0
-  - grpcio=1.37.0
-  - gts=0.7.6
-  - h5py=3.1.0
-  - hdf5=1.10.6
-  - icu=68.1
-  - importlib-metadata=3.10.1
-  - intel-openmp=2021.2.0
-  - joblib=1.0.1
-  - jpeg=9d
-  - keras=2.3.1
-  - keras-applications=1.0.8
-  - keras-preprocessing=1.1.2
-  - krb5=1.17.2
-  - libblas=3.9.0
-  - libcblas=3.9.0
-  - libcurl=7.76.0
-  - libffi=3.3
-  - libgd=2.3.2
-  - libglib=2.68.1
-  - libgpuarray=0.7.6
-  - libiconv=1.16
-  - liblapack=3.9.0
-  - libpng=1.6.37
-  - libprotobuf=3.15.8
-  - libssh2=1.9.0
-  - libtiff=4.2.0
-  - libuv=1.40.0
-  - libwebp=1.2.0
-  - libwebp-base=1.2.0
-  - libxcb=1.13
-  - libxml2=2.9.10
-  - lz4-c=1.9.3
-  - m2w64-gcc-libgfortran=5.3.0
-  - m2w64-gcc-libs=5.3.0
-  - m2w64-gcc-libs-core=5.3.0
-  - m2w64-gmp=6.1.0
-  - m2w64-libwinpthread-git=5.0.0.4634.697f757
-  - mako=1.1.4
-  - markdown=3.3.4
-  - markupsafe=1.1.1
-  - mkl=2020.4
-  - mkl-service=2.3.0
-  - msys2-conda-epoch=20160418
-  - multiprocess=0.70.11.1
-  - ninja=1.10.2
-  - numexpr=2.7.3
-  - numpy=1.19.5
-  - olefile=0.46
-  - openssl=1.1.1k
-  - osqp=0.5.0
-  - pandas=1.1.5
-  - pango=1.42.4
-  - pcre=8.44
-  - pillow=8.2.0
-  - pip=21.0.1
-  - pixman=0.40.0
-  - protobuf=3.15.8
-  - pthread-stubs=0.4
-  - pydotplus=2.0.2
-  - pygpu=0.7.6
-  - pyparsing=2.4.7
-  - pyreadline=2.1
-  - python=3.6.13
-  - python-dateutil=2.8.1
-  - python_abi=3.6
-  - pytorch=1.7.0
-  - pytz=2021.1
-  - pyyaml=5.4.1
-  - scikit-learn=0.23.2
-  - scikit-survival=0.14.0
-  - scipy=1.5.3
-  - scs=2.1.2
-  - setuptools=49.6.0
-  - six=1.15.0
-  - sklearn-json=0.1.0
-  - tensorboard=1.14.0
-  - tensorflow=1.14.0
-  - tensorflow-base=1.14.0
-  - tensorflow-estimator=1.14.0
-  - termcolor=1.1.0
-  - theano=1.0.5
-  - threadpoolctl=2.1.0
-  - tk=8.6.10
-  - torchvision=0.8.1
-  - typing_extensions=3.7.4.3
-  - vc=14.2
-  - vs2015_runtime=14.28.29325
-  - vs2017_win-64=19.16.27038
-  - vswhere=2.8.4
-  - werkzeug=1.0.1
-  - wheel=0.36.2
-  - wincertstore=0.2
-  - wrapt=1.12.1
-  - xorg-kbproto=1.0.7
-  - xorg-libice=1.0.10
-  - xorg-libsm=1.2.3
-  - xorg-libx11=1.7.0
-  - xorg-libxau=1.0.9
-  - xorg-libxdmcp=1.1.3
-  - xorg-libxext=1.3.4
-  - xorg-libxpm=3.5.13
-  - xorg-libxt=1.2.1
-  - xorg-xextproto=7.3.0
-  - xorg-xproto=7.0.31
-  - xz=5.2.5
-  - yaml=0.2.5
-  - zipp=3.4.1
-  - zlib=1.2.11
-  - zstd=1.4.9
+  - bzip2=1.0.8=h0d85af4_4
+  - ca-certificates=2022.6.15=h033912b_0
+  - cairo=1.16.0=h1680b09_1011
+  - expat=2.4.8=h96cf925_0
+  - font-ttf-dejavu-sans-mono=2.37=hab24e00_0
+  - font-ttf-inconsolata=3.000=h77eed37_0
+  - font-ttf-source-code-pro=2.038=h77eed37_0
+  - font-ttf-ubuntu=0.83=hab24e00_0
+  - fontconfig=2.14.0=h676cef8_0
+  - fonts-conda-ecosystem=1=0
+  - fonts-conda-forge=1=0
+  - freetype=2.10.4=h4cff582_1
+  - fribidi=1.0.10=hbcb3906_0
+  - gdk-pixbuf=2.42.8=hb161b9c_0
+  - gettext=0.19.8.1=hd1a6beb_1008
+  - giflib=5.2.1=hbcb3906_2
+  - glib=2.70.2=hcf210ce_4
+  - glib-tools=2.70.2=hcf210ce_4
+  - graphite2=1.3.13=h2e338ed_1001
+  - graphviz=2.50.0=h196fa6a_0
+  - gts=0.7.6=hccb3bdf_2
+  - harfbuzz=4.4.1=h00bb2c2_0
+  - icu=70.1=h96cf925_0
+  - joblib=1.1.0=pyhd8ed1ab_0
+  - jpeg=9e=hac89ed1_2
+  - lerc=3.0=he49afe7_0
+  - libblas=3.9.0=15_osx64_openblas
+  - libcblas=3.9.0=15_osx64_openblas
+  - libcxx=14.0.6=hce7ea42_0
+  - libdeflate=1.12=hac89ed1_0
+  - libffi=3.4.2=h0d85af4_5
+  - libgd=2.3.3=h1e214de_3
+  - libgfortran=5.0.0=9_3_0_h6c81a4c_23
+  - libgfortran5=9.3.0=h6c81a4c_23
+  - libglib=2.70.2=hf1fb8c0_4
+  - libiconv=1.16=haf1e3a3_0
+  - liblapack=3.9.0=15_osx64_openblas
+  - libopenblas=0.3.20=openmp_hb3cd9ec_0
+  - libpng=1.6.37=h5a3d3bf_3
+  - librsvg=2.54.4=h3d48ba6_0
+  - libtiff=4.4.0=h9847915_1
+  - libtool=2.4.6=he49afe7_1008
+  - libwebp=1.2.2=h28dabe5_0
+  - libwebp-base=1.2.2=h0d85af4_1
+  - libxml2=2.9.14=h08a9926_3
+  - libzlib=1.2.12=hfe4f2af_1
+  - llvm-openmp=14.0.4=ha654fa7_0
+  - lz4-c=1.9.3=he49afe7_1
+  - ncurses=6.3=h96cf925_1
+  - nomkl=1.0=h5ca1d4c_0
+  - numpy=1.23.1=py310ha3f357c_0
+  - openssl=3.0.5=hb81d4ab_1
+  - pandas=1.4.3=py310h3099161_0
+  - pango=1.50.8=he3a0ff7_0
+  - pcre=8.45=he49afe7_0
+  - pip=22.1.2=pyhd8ed1ab_0
+  - pixman=0.40.0=hbcb3906_0
+  - pydotplus=2.0.2=pyhaef67bd_5
+  - pyparsing=3.0.9=pyhd8ed1ab_0
+  - python=3.10.5=hdd68b96_0_cpython
+  - python-dateutil=2.8.2=pyhd8ed1ab_0
+  - python_abi=3.10=2_cp310
+  - pytz=2022.1=pyhd8ed1ab_0
+  - readline=8.1.2=h3899abd_0
+  - scikit-learn=1.1.2=py310h3ba92a3_0
+  - scipy=1.9.0=py310h70707f4_0
+  - setuptools=63.1.0=py310h2ec42d9_0
+  - six=1.16.0=pyh6c4a22f_0
+  - sklearn-json=0.1.0=pyhd8ed1ab_0
+  - sqlite=3.39.0=hd9f0692_0
+  - threadpoolctl=3.1.0=pyh8a188c0_0
+  - tk=8.6.12=h5dbffcc_0
+  - tzdata=2022a=h191b570_0
+  - wheel=0.37.1=pyhd8ed1ab_0
+  - xz=5.2.5=haf1e3a3_1
+  - zlib=1.2.12=hfe4f2af_1
+  - zstd=1.5.2=ha9df2e0_2
diff --git a/pyEnvironment_old.yml b/pyEnvironment_old.yml
new file mode 100644
index 0000000..19def23
--- /dev/null
+++ b/pyEnvironment_old.yml
@@ -0,0 +1,143 @@
+name: r-reticulate
+channels:
+  - sebp
+  - pytorch
+  - conda-forge
+  - defaults
+dependencies:
+  - absl-py=0.12.0
+  - astor=0.8.1
+  - blas=1.0
+  - ca-certificates=2020.12.5
+  - cached-property=1.5.2
+  - cached_property=1.5.2
+  - cairo=1.16.0
+  - certifi=2020.12.5
+  - cpuonly=1.0
+  - cvxopt=1.2.5
+  - cvxpy=1.0.31
+  - cvxpy-base=1.0.31
+  - dataclasses=0.8
+  - dill=0.3.3
+  - ecos=2.0.7.post1
+  - expat=2.3.0
+  - fastcache=1.1.0
+  - fontconfig=2.13.1
+  - freetype=2.10.4
+  - fribidi=1.0.10
+  - future=0.18.2
+  - gast=0.4.0
+  - getopt-win32=0.1
+  - gettext=0.19.8.1
+  - glpk=4.65
+  - google-pasta=0.2.0
+  - graphviz=2.47.0
+  - grpcio=1.37.0
+  - gts=0.7.6
+  - h5py=3.1.0
+  - hdf5=1.10.6
+  - icu=68.1
+  - importlib-metadata=3.10.1
+  - intel-openmp=2021.2.0
+  - joblib=1.0.1
+  - jpeg=9d
+  - keras=2.3.1
+  - keras-applications=1.0.8
+  - keras-preprocessing=1.1.2
+  - krb5=1.17.2
+  - libblas=3.9.0
+  - libcblas=3.9.0
+  - libcurl=7.76.0
+  - libffi=3.3
+  - libgd=2.3.2
+  - libglib=2.68.1
+  - libgpuarray=0.7.6
+  - libiconv=1.16
+  - liblapack=3.9.0
+  - libpng=1.6.37
+  - libprotobuf=3.15.8
+  - libssh2=1.9.0
+  - libtiff=4.2.0
+  - libuv=1.40.0
+  - libwebp=1.2.0
+  - libwebp-base=1.2.0
+  - libxcb=1.13
+  - libxml2=2.9.10
+  - lz4-c=1.9.3
+  - m2w64-gcc-libgfortran=5.3.0
+  - m2w64-gcc-libs=5.3.0
+  - m2w64-gcc-libs-core=5.3.0
+  - m2w64-gmp=6.1.0
+  - m2w64-libwinpthread-git=5.0.0.4634.697f757
+  - mako=1.1.4
+  - markdown=3.3.4
+  - markupsafe=1.1.1
+  - mkl=2020.4
+  - mkl-service=2.3.0
+  - msys2-conda-epoch=20160418
+  - multiprocess=0.70.11.1
+  - ninja=1.10.2
+  - numexpr=2.7.3
+  - numpy=1.19.5
+  - olefile=0.46
+  - openssl=1.1.1k
+  - osqp=0.5.0
+  - pandas=1.1.5
+  - pango=1.42.4
+  - pcre=8.44
+  - pillow=8.2.0
+  - pip=21.0.1
+  - pixman=0.40.0
+  - protobuf=3.15.8
+  - pthread-stubs=0.4
+  - pydotplus=2.0.2
+  - pygpu=0.7.6
+  - pyparsing=2.4.7
+  - pyreadline=2.1
+  - python=3.6.13
+  - python-dateutil=2.8.1
+  - python_abi=3.6
+  - pytorch=1.7.0
+  - pytz=2021.1
+  - pyyaml=5.4.1
+  - scikit-learn=0.23.2
+  - scikit-survival=0.14.0
+  - scipy=1.5.3
+  - scs=2.1.2
+  - setuptools=49.6.0
+  - six=1.15.0
+  - sklearn-json=0.1.0
+  - tensorboard=1.14.0
+  - tensorflow=1.14.0
+  - tensorflow-base=1.14.0
+  - tensorflow-estimator=1.14.0
+  - termcolor=1.1.0
+  - theano=1.0.5
+  - threadpoolctl=2.1.0
+  - tk=8.6.10
+  - torchvision=0.8.1
+  - typing_extensions=3.7.4.3
+  - vc=14.2
+  - vs2015_runtime=14.28.29325
+  - vs2017_win-64=19.16.27038
+  - vswhere=2.8.4
+  - werkzeug=1.0.1
+  - wheel=0.36.2
+  - wincertstore=0.2
+  - wrapt=1.12.1
+  - xorg-kbproto=1.0.7
+  - xorg-libice=1.0.10
+  - xorg-libsm=1.2.3
+  - xorg-libx11=1.7.0
+  - xorg-libxau=1.0.9
+  - xorg-libxdmcp=1.1.3
+  - xorg-libxext=1.3.4
+  - xorg-libxpm=3.5.13
+  - xorg-libxt=1.2.1
+  - xorg-xextproto=7.3.0
+  - xorg-xproto=7.0.31
+  - xz=5.2.5
+  - yaml=0.2.5
+  - zipp=3.4.1
+  - zlib=1.2.11
+  - zstd=1.4.9
diff --git a/renv.lock b/renv.lock
index 050b55d..35fe8dc 100644
--- a/renv.lock
+++ b/renv.lock
@@ -1,967 +1,1858 @@
 {
 	"R" : {
-		"Version" : "4.0.5",
+		"Version" : "4.2.0",
 		"Repositories" : [
 			{
 				"Name" : "CRAN",
-				"URL" : "https://cloud.r-project.org"
+				"URL" : "http://cran.rstudio.com"
 			}
 		]
 	},
 	"Packages" : {
-		"rlang" : {
-			"Package" : "rlang",
-			"Version" : "0.4.10",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"ellipsis" : {
-			"Package" : "ellipsis",
-			"Version" : "0.3.1",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"glue" : {
-			"Package" : "glue",
-			"Version" : "1.6.1",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"cli" : {
-			"Package" : "cli",
-			"Version" : "3.2.0",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"colorspace" : {
-			"Package" : "colorspace",
-			"Version" : "2.0-0",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"crayon" : {
-			"Package" : "crayon",
-			"Version" : "1.4.1",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"fansi" : {
-			"Package" : "fansi",
-			"Version" : "0.4.2",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"lattice" : {
-			"Package" : "lattice",
-			"Version" : "0.20-41",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"lifecycle" : {
-			"Package" : "lifecycle",
-			"Version" : "1.0.0",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"magrittr" : {
-			"Package" : "magrittr",
-			"Version" : "2.0.1",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"pkgconfig" : {
-			"Package" : "pkgconfig",
-			"Version" : "2.0.3",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"utf8" : {
-			"Package" : "utf8",
-			"Version" : "1.2.1",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
-		},
-		"vctrs" : {
-			"Package" : "vctrs",
-			"Version" : "0.3.7",
+		"Andromeda" : {
+			"Package" : "Andromeda",
+			"Version" : "0.6.0",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "c03eeb15fba2d294702853cd5ab7aaae",
+			"Requirements" : [
+				"DBI",
+				"RSQLite",
+				"cli",
+				"dbplyr",
+				"dplyr",
+				"hms",
+				"pillar",
+				"rlang",
+				"tidyselect",
+				"zip"
+			]
 		},
-		"base64enc" : {
-			"Package" : "base64enc",
-			"Version" : "0.1-3",
+		"BH" : {
+			"Package" : "BH",
+			"Version" : "1.78.0-0",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "4e348572ffcaa2fb1e610e7a941f6f3a",
+			"Requirements" : []
 		},
-		"bit" : {
-			"Package" : "bit",
-			"Version" : "4.0.4",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
+		"CirceR" : {
+			"Package" : "CirceR",
+			"Version" : "1.1.1",
+			"Source" : "GitHub",
+			"RemoteType" : "github",
+			"RemoteHost" : "api.github.com",
+			"RemoteRepo" : "CirceR",
+			"RemoteUsername" : "ohdsi",
+			"RemoteRef" : "v1.1.1",
+			"Requirements" : [
+				"RJSONIO",
+				"rJava"
+			]
 		},
-		"cpp11" : {
-			"Package" : "cpp11",
-			"Version" : "0.2.7",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
+		"CohortGenerator" : {
+			"Package" : "CohortGenerator",
+			"Version" : "0.4.0",
+			"Source" : "GitHub",
+			"Remotes" : "ohdsi/CirceR, ohdsi/Eunomia, ohdsi/ROhdsiWebApi",
+			"RemoteType" : "github",
+			"RemoteHost" : "api.github.com",
+			"RemoteRepo" : "CohortGenerator",
+			"RemoteUsername" : "ohdsi",
+			"RemoteRef" : "v0.4.0",
+			"Requirements" : [
+				"DatabaseConnector",
+				"ParallelLogger",
+				"RJSONIO",
+				"SqlRender",
+				"checkmate",
+				"digest",
+				"dplyr",
+				"lubridate",
+				"readr",
+				"rlang",
+				"stringi"
+			]
 		},
-		"digest" : {
-			"Package" : "digest",
-			"Version" : "0.6.27",
-			"Source" : "Repository",
-			"Repository" : "CRAN"
+		"Cyclops" : {
+			"Package" : "Cyclops",
+			"Version" : "3.1.2",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "2bc88b32343150d9c4a4b943f007d034",
+			"Requirements" : [
+				"Andromeda",
+				"BH",
+				"Matrix",
+				"Rcpp",
+				"RcppEigen",
+				"bit64",
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-			"Version" : "0.2.2",
+		"stringi" : {
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+			"Version" : "1.7.6",
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-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "bba431031d30789535745a9627ac9271",
+			"Requirements" : []
 		},
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+		"stringr" : {
+			"Package" : "stringr",
+			"Version" : "1.4.0",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "0759e6b6c0957edb1311028a49a35e76",
+			"Requirements" : [
+				"glue",
+				"magrittr",
+				"stringi"
+			]
 		},
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-			"Package" : "DT",
-			"Version" : "0.17",
+		"survival" : {
+			"Package" : "survival",
+			"Version" : "3.3-1",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "f6189c70451d3d68e0d571235576e833",
+			"Requirements" : "Matrix"
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 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "b227d13e29222b4574486cfcbde077fa",
+			"Requirements" : []
 		},
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+		"systemfonts" : {
+			"Package" : "systemfonts",
+			"Version" : "1.0.4",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "90b28393209827327de889f49935140a",
+			"Requirements" : "cpp11"
+		},
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+			"Hash" : "f76c2a02d0fdc24aa7a47ea34261a6e3",
+			"Requirements" : [
+				"R6",
+				"brio",
+				"callr",
+				"cli",
+				"crayon",
+				"desc",
+				"digest",
+				"ellipsis",
+				"evaluate",
+				"jsonlite",
+				"lifecycle",
+				"magrittr",
+				"pkgload",
+				"praise",
+				"processx",
+				"ps",
+				"rlang",
+				"waldo",
+				"withr"
+			]
+		},
+		"textshaping" : {
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+			"Source" : "Repository",
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+			"Hash" : "1ab6223d3670fac7143202cb6a2d43d5",
+			"Requirements" : [
+				"cpp11",
+				"systemfonts"
+			]
 		},
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-			"Version" : "4.3",
+		"tibble" : {
+			"Package" : "tibble",
+			"Version" : "3.1.7",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "08415af406e3dd75049afef9552e7355",
+			"Requirements" : [
+				"ellipsis",
+				"fansi",
+				"lifecycle",
+				"magrittr",
+				"pillar",
+				"pkgconfig",
+				"rlang",
+				"vctrs"
+			]
+		},
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+			"Version" : "1.2.0",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "d8b95b7fee945d7da6888cf7eb71a49c",
+			"Requirements" : [
+				"cpp11",
+				"dplyr",
+				"ellipsis",
+				"glue",
+				"lifecycle",
+				"magrittr",
+				"purrr",
+				"rlang",
+				"tibble",
+				"tidyselect",
+				"vctrs"
+			]
+		},
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+			"Package" : "tidyselect",
+			"Version" : "1.1.2",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "17f6da8cfd7002760a859915ce7eef8f",
+			"Requirements" : [
+				"ellipsis",
+				"glue",
+				"purrr",
+				"rlang",
+				"vctrs"
+			]
+		},
+		"tinytex" : {
+			"Package" : "tinytex",
+			"Version" : "0.39",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "29f67ab15405b390b90e56ff22198ead",
+			"Requirements" : "xfun"
 		},
-		"openssl" : {
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-			"Version" : "1.4.3",
+		"triebeard" : {
+			"Package" : "triebeard",
+			"Version" : "0.3.0",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "847a9d113b78baca4a9a8639609ea228",
+			"Requirements" : "Rcpp"
 		},
-		"httr" : {
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-			"Version" : "1.4.2",
+		"tzdb" : {
+			"Package" : "tzdb",
+			"Version" : "0.3.0",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "b2e1cbce7c903eaf23ec05c58e59fb5e",
+			"Requirements" : "cpp11"
 		},
-		"plotly" : {
-			"Package" : "plotly",
-			"Version" : "4.9.3",
+		"urltools" : {
+			"Package" : "urltools",
+			"Version" : "1.7.3",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "e86a704261a105f4703f653e05defa3e",
+			"Requirements" : [
+				"Rcpp",
+				"triebeard"
+			]
+		},
+		"usethis" : {
+			"Package" : "usethis",
+			"Version" : "2.1.5",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "c499f488e6dd7718accffaee5bc5a79b",
+			"Requirements" : [
+				"cli",
+				"clipr",
+				"crayon",
+				"curl",
+				"desc",
+				"fs",
+				"gert",
+				"gh",
+				"glue",
+				"jsonlite",
+				"lifecycle",
+				"purrr",
+				"rappdirs",
+				"rlang",
+				"rprojroot",
+				"rstudioapi",
+				"whisker",
+				"withr",
+				"yaml"
+			]
 		},
-		"pool" : {
-			"Package" : "pool",
-			"Version" : "0.1.6",
+		"utf8" : {
+			"Package" : "utf8",
+			"Version" : "1.2.2",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "c9c462b759a5cc844ae25b5942654d13",
+			"Requirements" : []
 		},
-		"shinycssloaders" : {
-			"Package" : "shinycssloaders",
-			"Version" : "1.0.0",
+		"vctrs" : {
+			"Package" : "vctrs",
+			"Version" : "0.4.1",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "8b54f22e2a58c4f275479c92ce041a57",
+			"Requirements" : [
+				"cli",
+				"glue",
+				"rlang"
+			]
 		},
-		"shinydashboard" : {
-			"Package" : "shinydashboard",
-			"Version" : "0.7.1",
+		"viridisLite" : {
+			"Package" : "viridisLite",
+			"Version" : "0.4.0",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "55e157e2aa88161bdb0754218470d204",
+			"Requirements" : []
 		},
-		"shinyWidgets" : {
-			"Package" : "shinyWidgets",
-			"Version" : "0.6.0",
+		"vroom" : {
+			"Package" : "vroom",
+			"Version" : "1.5.7",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "976507b5a105bc3bdf6a5a5f29e0684f",
+			"Requirements" : [
+				"bit64",
+				"cli",
+				"cpp11",
+				"crayon",
+				"glue",
+				"hms",
+				"lifecycle",
+				"progress",
+				"rlang",
+				"tibble",
+				"tidyselect",
+				"tzdb",
+				"vctrs",
+				"withr"
+			]
+		},
+		"waldo" : {
+			"Package" : "waldo",
+			"Version" : "0.4.0",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "035fba89d0c86e2113120f93301b98ad",
+			"Requirements" : [
+				"cli",
+				"diffobj",
+				"fansi",
+				"glue",
+				"rematch2",
+				"rlang",
+				"tibble"
+			]
+		},
+		"whisker" : {
+			"Package" : "whisker",
+			"Version" : "0.4",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "ca970b96d894e90397ed20637a0c1bbe",
+			"Requirements" : []
 		},
-		"renv" : {
-			"Package" : "renv",
-			"Version" : "0.13.2",
+		"withr" : {
+			"Package" : "withr",
+			"Version" : "2.5.0",
 			"Source" : "Repository",
-			"Repository" : "CRAN"
+			"Repository" : "CRAN",
+			"Hash" : "c0e49a9760983e81e55cdd9be92e7182",
+			"Requirements" : []
 		},
-		"CohortGenerator" : {
-			"Package" : "CohortGenerator",
-			"Version" : "0.3.0",
-			"Source" : "GitHub",
-			"RemoteType" : "github",
-			"RemoteHost" : "api.github.com",
-			"RemoteRepo" : "CohortGenerator",
-			"RemoteUsername" : "ohdsi",
-			"RemoteRef" : "v0.3.0"
+		"xfun" : {
+			"Package" : "xfun",
+			"Version" : "0.30",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "e83f48136b041845e50a6658feffb197",
+			"Requirements" : []
 		},
-		"FeatureExtraction" : {
-			"Package" : "FeatureExtraction",
-			"Version" : "3.1.1",
-			"Source" : "GitHub",
-			"RemoteType" : "github",
-			"RemoteHost" : "api.github.com",
-			"RemoteRepo" : "FeatureExtraction",
-			"RemoteUsername" : "ohdsi",
-			"RemoteRef" : "v3.1.1"
+		"xml2" : {
+			"Package" : "xml2",
+			"Version" : "1.3.3",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "40682ed6a969ea5abfd351eb67833adc",
+			"Requirements" : []
 		},
-		"OhdsiSharing" : {
-			"Package" : "OhdsiSharing",
-			"Version" : "0.2.2",
-			"Source" : "GitHub",
-			"RemoteType" : "github",
-			"RemoteHost" : "api.github.com",
-			"RemoteRepo" : "OhdsiSharing",
-			"RemoteUsername" : "ohdsi",
-			"RemoteRef" : "v0.2.2"
+		"xopen" : {
+			"Package" : "xopen",
+			"Version" : "1.0.0",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "6c85f015dee9cc7710ddd20f86881f58",
+			"Requirements" : "processx"
 		},
-		"PatientLevelPrediction" : {
-			"Package" : "PatientLevelPrediction",
-			"Version" : "5.0.2",
-			"Source" : "GitHub",
-			"RemoteType" : "github",
-			"RemoteHost" : "api.github.com",
-			"RemoteRepo" : "PatientLevelPrediction",
-			"RemoteUsername" : "ohdsi",
-			"RemoteRef" : "v5.0.2"
+		"xtable" : {
+			"Package" : "xtable",
+			"Version" : "1.8-4",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "b8acdf8af494d9ec19ccb2481a9b11c2",
+			"Requirements" : []
 		},
-		"CirceR" : {
-			"Package" : "CirceR",
-			"Version" : "1.1.1",
-			"Source" : "GitHub",
-			"RemoteType" : "github",
-			"RemoteHost" : "api.github.com",
-			"RemoteRepo" : "CirceR",
-			"RemoteUsername" : "ohdsi",
-			"RemoteRef" : "v1.1.1"
+		"yaml" : {
+			"Package" : "yaml",
+			"Version" : "2.3.5",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "458bb38374d73bf83b1bb85e353da200",
+			"Requirements" : []
 		},
-		"Hydra" : {
-			"Package" : "Hydra",
-			"Version" : "0.3.0",
-			"Source" : "GitHub",
-			"RemoteType" : "github",
-			"RemoteHost" : "api.github.com",
-			"RemoteRepo" : "Hydra",
-			"RemoteUsername" : "ohdsi",
-			"RemoteRef" : "v0.3.0"
+		"zip" : {
+			"Package" : "zip",
+			"Version" : "2.2.0",
+			"Source" : "Repository",
+			"Repository" : "CRAN",
+			"Hash" : "c7eef2996ac270a18c2715c997a727c5",
+			"Requirements" : []
 		}
 	}
-}
+}
\ No newline at end of file