* using log directory ‘/Users/ripley/R/packages/tests-devel/DataQualityDashboard.Rcheck’
* using R Under development (unstable) (2026-04-30 r89988)
* using platform: aarch64-apple-darwin25.4.0
* R was compiled by
    Apple clang version 21.0.0 (clang-2100.1.1.101)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Tahoe 26.4.1
* using session charset: UTF-8
* current time: 2026-05-02 08:13:38 UTC
* using option ‘--no-stop-on-test-error’
* checking for file ‘DataQualityDashboard/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DataQualityDashboard’ version ‘2.8.7’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘DataQualityDashboard’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’ [20s/24s]
 [21s/24s] ERROR
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(DataQualityDashboard)
  Loading required package: DatabaseConnector
  > 
  > test_check("DataQualityDashboard")
  Consider adding `DATABASECONNECTOR_JAR_FOLDER='/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/jdbcDrivers162b76ec77e27'` to /Users/ripley/.Renviron and restarting R.
  trying URL 'https://jdbc.postgresql.org/download/postgresql-42.7.3.jar'
  Content type 'application/java-archive' length 1089312 bytes (1.0 MB)
  ==================================================
  downloaded 1.0 MB
  
  DatabaseConnector postgresql JDBC driver downloaded to '/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/jdbcDrivers162b76ec77e27'.
  Consider adding `DATABASECONNECTOR_JAR_FOLDER='/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/jdbcDrivers162b76ec77e27'` to /Users/ripley/.Renviron and restarting R.
  trying URL 'https://ohdsi.github.io/DatabaseConnectorJars/sqlServerV9.2.0.zip'
  Content type 'application/x-zip-compressed' length 1262814 bytes (1.2 MB)
  ==================================================
  downloaded 1.2 MB
  
  DatabaseConnector sql server JDBC driver downloaded to '/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/jdbcDrivers162b76ec77e27'.
  Consider adding `DATABASECONNECTOR_JAR_FOLDER='/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/jdbcDrivers162b76ec77e27'` to /Users/ripley/.Renviron and restarting R.
  trying URL 'https://ohdsi.github.io/DatabaseConnectorJars/oracleV19.8.zip'
  Content type 'application/x-zip-compressed' length 4101479 bytes (3.9 MB)
  ==================================================
  downloaded 3.9 MB
  
  DatabaseConnector oracle JDBC driver downloaded to '/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/jdbcDrivers162b76ec77e27'.
  Consider adding `DATABASECONNECTOR_JAR_FOLDER='/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/jdbcDrivers162b76ec77e27'` to /Users/ripley/.Renviron and restarting R.
  trying URL 'https://s3.amazonaws.com/redshift-downloads/drivers/jdbc/2.1.0.20/redshift-jdbc42-2.1.0.20.zip'
  Content type 'application/zip' length 8434563 bytes (8.0 MB)
  ==================================================
  downloaded 8.0 MB
  
  DatabaseConnector redshift JDBC driver downloaded to '/var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/jdbcDrivers162b76ec77e27'.
  attempting to download GiBleed
  trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
  Content type 'application/zip' length 6861852 bytes (6.5 MB)
  ==================================================
  downloaded 6.5 MB
  
  attempting to extract and load: /var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/GiBleed_5.3.zip to: /var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/GiBleed_5.3.sqlite
  Connecting using SQLite driver
  Executing SQL took 0.0035 secs
  Connecting using SQLite driver
  Currently in a tryCatch or withCallingHandlers block, so unable to add global calling handlers. ParallelLogger will not capture R messages, errors, and warnings, only explicit calls to ParallelLogger. (This message will not be shown again this R session)
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: COST, CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: cdmTable
  [Level: TABLE] [Check: cdmTable] [CDM Table: PERSON] [CDM Field: NA] row names contain missing values
  Saving _problems/test-calculateNotApplicableStatus-69.R
  Connecting using SQLite driver
  Executing SQL took 0.0242 secs
  Executing SQL took 0.00246 secs
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: COST, CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: cdmTable
  [Level: TABLE] [Check: cdmTable] [CDM Table: PERSON] [CDM Field: NA] row names contain missing values
  Saving _problems/test-calculateNotApplicableStatus-103.R
  Connecting using SQLite driver
  Executing SQL took 0.0156 secs
  Executing SQL took 0.00195 secs
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: COST, CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: cdmTable
  [Level: TABLE] [Check: cdmTable] [CDM Table: PERSON] [CDM Field: NA] row names contain missing values
  Saving _problems/test-calculateNotApplicableStatus-140.R
  Connecting using SQLite driver
  Executing SQL took 0.00227 secs
  Executing SQL took 0.00128 secs
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: COST, CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: cdmTable
  [Level: TABLE] [Check: cdmTable] [CDM Table: PERSON] [CDM Field: NA] row names contain missing values
  Saving _problems/test-calculateNotApplicableStatus-177.R
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  [Level: TABLE] [Check: measurePersonCompleteness] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-convertResultsCase-23.R
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  [Level: TABLE] [Check: measurePersonCompleteness] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-executeDqChecks-23.R
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: cdmTable
  [Level: TABLE] [Check: cdmTable] [CDM Table: PERSON] [CDM Field: NA] row names contain missing values
  Saving _problems/test-executeDqChecks-47.R
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: cdmField
  [Level: FIELD] [Check: cdmField] [CDM Table: CARE_SITE] [CDM Field: CARE_SITE_ID] row names contain missing values
  Saving _problems/test-executeDqChecks-71.R
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: plausibleGender
  [Level: CONCEPT] [Check: plausibleGender] [CDM Table: CONDITION_OCCURRENCE] [CDM Field: CONDITION_CONCEPT_ID] Error executing SQL:
  near ",": syntax error
  An error report has been created at  /var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/dqd_162b75c012c6d/errors/CONCEPT_plausibleGender_CONDITION_OCCURRENCE_CONDITION_CONCEPT_ID.txt
  Processing check description: plausibleUnitConceptIds
  Writing results to file: /var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/dqd_162b75c012c6d/synthea-20260502091423.json
  Execution Complete
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measureObservationPeriodOverlap
  [Level: TABLE] [Check: measureObservationPeriodOverlap] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-executeDqChecks-122.R
  Connecting using SQLite driver
  
    |                                                                            
    |                                                                      |   0%
    |                                                                            
    |======================================================================| 100%
  Executing SQL took 0.00172 secs
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  [Level: TABLE] [Check: measurePersonCompleteness] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-executeDqChecks-270.R
  [1] "Processing database type: oracle"
  [1] "No connection details found for oracle, skipping..."
  [1] "Processing database type: postgresql"
  [1] "No connection details found for postgresql, skipping..."
  [1] "Processing database type: sql server"
  [1] "No connection details found for sql server, skipping..."
  [1] "Processing database type: redshift"
  [1] "No connection details found for redshift, skipping..."
  [1] "Processing database type: iris"
  [1] "No connection details found for iris, skipping..."
  [1] "Processing database type: snowflake"
  [1] "No connection details found for snowflake, skipping..."
  [1] "Processing database type: spark"
  [1] "No connection details found for spark, skipping..."
  [1] "Processing database type: bigquery"
  [1] "No connection details found for bigquery, skipping..."
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  [Level: TABLE] [Check: measurePersonCompleteness] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-executeDqChecks-473.R
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  Saving _problems/test-executeDqChecks-505.R
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  Saving _problems/test-executeDqChecks-538.R
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  Saving _problems/test-executeDqChecks-603.R
  Connecting using SQLite driver
  
    |                                                                            
    |                                                                      |   0%
    |                                                                            
    |======================================================================| 100%
  Executing SQL took 0.00147 secs
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  [Level: TABLE] [Check: measurePersonCompleteness] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-executeDqChecks-640.R
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  [Level: TABLE] [Check: measurePersonCompleteness] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-executeDqChecks-671.R
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: cdmTable
  [Level: TABLE] [Check: cdmTable] [CDM Table: PERSON] [CDM Field: NA] row names contain missing values
  Saving _problems/test-executeDqChecks-695.R
  attempting to download GiBleed
  trying URL 'https://raw.githubusercontent.com/OHDSI/EunomiaDatasets/main/datasets/GiBleed/GiBleed_5.3.zip'
  Content type 'application/zip' length 6861852 bytes (6.5 MB)
  ==================================================
  downloaded 6.5 MB
  
  attempting to extract and load: /var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/GiBleed_5.3.zip to: /var/folders/pk/n4bndnt1287ctrd_ftthnnnr0000gp/T//RtmpTRc5jr/working_dir/RtmpAlalTQ/GiBleed_5.3_1.5.duckdb
  Connecting using DuckDB driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  [Level: TABLE] [Check: measurePersonCompleteness] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-executeDqChecks-735.R
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  Connecting using SQLite driver
  Executing SQL took 0.00172 secs
  Executing SQL took 0.00172 secs
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: COST, CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: plausibleAfterBirth
  [Level: FIELD] [Check: plausibleAfterBirth] [CDM Table: CONDITION_ERA] [CDM Field: CONDITION_ERA_START_DATE] row names contain missing values
  Saving _problems/test-plausibleAfterBirth-45.R
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  [Level: TABLE] [Check: measurePersonCompleteness] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-reEvaluateThresholds-22.R
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  [Level: TABLE] [Check: measurePersonCompleteness] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-writeDBResultsTo-30.R
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  [Level: TABLE] [Check: measurePersonCompleteness] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-writeJsonResultsTo-22.R
  Connecting using SQLite driver
  
  -- Column specification --------------------------------------------------------
  cols(
    checkLevel = col_character(),
    checkName = col_character(),
    checkDescription = col_character(),
    kahnContext = col_character(),
    kahnCategory = col_character(),
    kahnSubcategory = col_character(),
    sqlFile = col_character(),
    evaluationFilter = col_character(),
    severity = col_character()
  )
  
  CDM Tables skipped: CONCEPT, VOCABULARY, CONCEPT_ANCESTOR, CONCEPT_RELATIONSHIP, CONCEPT_CLASS, CONCEPT_SYNONYM, RELATIONSHIP, DOMAIN
  Processing check description: measurePersonCompleteness
  [Level: TABLE] [Check: measurePersonCompleteness] [CDM Table: OBSERVATION_PERIOD] [CDM Field: NA] row names contain missing values
  Saving _problems/test-writeJsonResultsTo-68.R
  [ FAIL 23 | WARN 0 | SKIP 3 | PASS 28 ]
  
  ══ Skipped tests (3) ═══════════════════════════════════════════════════════════
  • On CRAN (1): 'test-executeDqChecks.R:547:1'
  • empty test (2): 'test-executeDqChecks.R:280:1',
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-calculateNotApplicableStatus.R:52:3'): Not Applicable status Table Empty ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-calculateNotApplicableStatus.R:52:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-calculateNotApplicableStatus.R:86:3'): measureConditionEraCompleteness Not Applicable if condition_occurrence empty ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-calculateNotApplicableStatus.R:86:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-calculateNotApplicableStatus.R:123:3'): measureConditionEraCompleteness Fails if condition_era empty ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-calculateNotApplicableStatus.R:123:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-calculateNotApplicableStatus.R:160:3'): measurePersonCompleteness NOT marked as Not Applicable when table is empty ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-calculateNotApplicableStatus.R:160:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-convertResultsCase.R:7:3'): Camel correctly converted to snake and back ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-convertResultsCase.R:7:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:8:3'): Execute a single DQ check on Synthea/Eunomia ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:8:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:32:3'): Execute all TABLE checks on Synthea/Eunomia ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:32:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:56:3'): Execute FIELD checks on Synthea/Eunomia ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:56:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:107:3'): Execute observation period overlap check ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:107:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:253:3'): Execute a single DQ check on a cohort in Synthea/Eunomia ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:253:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:457:3'): Execute DQ checks and write to table ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:457:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:486:3'): Execute DQ checks using sqlOnly=TRUE and sqlOnlyUnionCount=4 and sqlOnlyIncrementalInsert=TRUE ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:486:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.createSqlOnlyQueries(...)
    9.               └─DataQualityDashboard:::.recordResult(...)
   10.                 └─base::data.frame(...)
   11.                   ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   12.                   └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   13.                     └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:519:3'): Execute DQ checks using sqlOnly=TRUE and sqlOnlyUnionCount=1 and sqlOnlyIncrementalInsert=TRUE ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:519:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.createSqlOnlyQueries(...)
    9.               └─DataQualityDashboard:::.recordResult(...)
   10.                 └─base::data.frame(...)
   11.                   ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   12.                   └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   13.                     └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:584:3'): Incremental insert SQL is valid. ────
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:584:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.createSqlOnlyQueries(...)
    9.               └─DataQualityDashboard:::.recordResult(...)
   10.                 └─base::data.frame(...)
   11.                   ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   12.                   └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   13.                     └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:630:3'): Multiple cdm_source rows triggers warning. ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─testthat::capture_warnings(...) at test-executeDqChecks.R:630:3
    2. │ └─base::withCallingHandlers(...)
    3. └─DataQualityDashboard::executeDqChecks(...)
    4.   └─ParallelLogger::clusterApply(...)
    5.     └─base::lapply(x, fun, ...)
    6.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    7.         └─base::apply(...)
    8.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    9.             └─DataQualityDashboard:::.processCheck(...)
   10.               └─base::tryCatch(...)
   11.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   12.                   └─base (local) tryCatchOne(...)
   13.                     └─value[[3L]](cond)
   14.                       └─DataQualityDashboard:::.recordResult(...)
   15.                         └─base::data.frame(...)
   16.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   18.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:651:3'): Execute checks on Synthea/Eunomia to test new variable executionTimeSeconds ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:651:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:680:3'): checkNames are filtered by checkSeverity ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:680:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-executeDqChecks.R:720:3'): Execute a single DQ check on DuckDB ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-executeDqChecks.R:720:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-plausibleAfterBirth.R:29:3'): plausibleAfterBirth allows events on same day as birth (issue #561) ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-plausibleAfterBirth.R:29:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-reEvaluateThresholds.R:7:3'): Execute reEvaluateThresholds on Synthea/Eunomia ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-reEvaluateThresholds.R:7:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-writeDBResultsTo.R:12:3'): Write DB results to json ────────────
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-writeDBResultsTo.R:12:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-writeJsonResultsTo.R:7:3'): Write JSON results ─────────────────
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-writeJsonResultsTo.R:7:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  ── Error ('test-writeJsonResultsTo.R:53:3'): Write JSON results with singleTable parameter ──
  Error in `as.data.frame.vector(x, ..., nm = nm)`: row names contain missing values
  Backtrace:
       ▆
    1. ├─base::withCallingHandlers(...) at test-writeJsonResultsTo.R:53:3
    2. └─DataQualityDashboard::executeDqChecks(...)
    3.   └─ParallelLogger::clusterApply(...)
    4.     └─base::lapply(x, fun, ...)
    5.       └─DataQualityDashboard (local) FUN(X[[i]], ...)
    6.         └─base::apply(...)
    7.           └─DataQualityDashboard (local) FUN(newX[, i], ...)
    8.             └─DataQualityDashboard:::.processCheck(...)
    9.               └─base::tryCatch(...)
   10.                 └─base (local) tryCatchList(expr, classes, parentenv, handlers)
   11.                   └─base (local) tryCatchOne(...)
   12.                     └─value[[3L]](cond)
   13.                       └─DataQualityDashboard:::.recordResult(...)
   14.                         └─base::data.frame(...)
   15.                           ├─base::as.data.frame(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   16.                           └─base::as.data.frame.character(x[[i]], optional = TRUE, stringsAsFactors = stringsAsFactors)
   17.                             └─base::as.data.frame.vector(x, ..., nm = nm)
  
  [ FAIL 23 | WARN 0 | SKIP 3 | PASS 28 ]
  Error:
  ! Test failures.
  Warning message:
  call dbDisconnect() when finished working with a connection 
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* checking HTML version of manual ... OK
* checking for detritus in the temp directory ... OK
* DONE

Status: 1 ERROR
See
  ‘/Users/ripley/R/packages/tests-devel/DataQualityDashboard.Rcheck/00check.log’
for details.

       56.47 real        39.99 user         9.32 sys