R Under development (unstable) (2024-09-02 r87090 ucrt) -- "Unsuffered Consequences"
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> library(testthat)
> options(dbms = "sqlite")
> runTestsOnEunomia <- TRUE
> if (runTestsOnEunomia) {
+   test_check("FeatureExtraction")
+ }
Loading required package: FeatureExtraction
Loading required package: DatabaseConnector
Loading required package: Andromeda
Loading required package: dplyr

Attaching package: 'dplyr'

The following object is masked from 'package:testthat':

    matches

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union

************* Testing on sqlite *************

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: D:\temp\RtmpIxZgw7/GiBleed_5.3.zip to: D:\temp\RtmpIxZgw7/GiBleed_5.3.sqlite
Connecting using SQLite driver
Executing SQL took 0.0302 secs
Cohorts created in table main.cohort
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.408 secs
Constructing features on server
Fetching data from server
Fetching data took 0.25 secs
# CovariateData object

Cohorts of interest IDs: 1, 2

Inherits from Andromeda:
# Andromeda object
# Physical location:  D:\temp\RtmpIxZgw7\file79d0354c27e7.sqlite

Tables:
$analysisRef (analysisId, analysisName, domainId, startDay, endDay, isBinary, missingMeansZero)
$covariateRef (covariateId, covariateName, analysisId, conceptId)
$covariates (cohortDefinitionId, covariateId, covariateValue, rowId)
Constructing features on server
Fetching data from server
Fetching data took 0.182 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.21 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.205 secs
Constructing features on server
Fetching data from server
Fetching data took 0.176 secs
Constructing features on server
Fetching data from server
Fetching data took 0.184 secs
Constructing features on server
Fetching data from server
Fetching data took 0.159 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.251 secs
Constructing features on server
Fetching data from server
Fetching data took 0.189 secs
Aggregating covariates took 0.743 secs
Constructing features on server
Fetching data from server
Fetching data took 0.195 secs
Constructing features on server
Fetching data from server
Fetching data took 0.145 secs
Constructing features on server
Fetching data from server
Fetching data took 0.172 secs
Constructing features on server
Fetching data from server
Fetching data took 0.172 secs
Constructing features on server
Fetching data from server
Fetching data took 0.199 secs
Constructing features on server
Fetching data from server
Fetching data took 0.255 secs
Constructing features on server
Fetching data from server
Fetching data took 0.239 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.329 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.266 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.177 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.211 secs
Tidying covariates took 0.26 secs
Removing 1 redundant covariates
Removing 1 infrequent covariates
Normalizing covariates
Tidying covariates took 1.34 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.207 secs
Removing 0 redundant covariate ID - time ID combinations
Removing 0 infrequent covariates
Normalizing covariates
Tidying covariates took 1.65 secs
[ FAIL 0 | WARN 5 | SKIP 82 | PASS 128 ]

══ Skipped tests (82) ══════════════════════════════════════════════════════════
• On CRAN (26): 'test-Aggregation.R:6:3', 'test-CompareCohorts.R:42:3',
  'test-CovariateData.R:55:3', 'test-CovariateData.R:99:3',
  'test-CovariateData.R:160:3', 'test-CovariateData.R:174:3',
  'test-GetCohortBasedCovariates.R:489:3',
  'test-GetCohortBasedCovariates.R:500:3',
  'test-GetCohortBasedCovariates.R:511:3',
  'test-GetCohortBasedCovariates.R:522:3',
  'test-GetCohortBasedCovariates.R:533:3',
  'test-GetCohortBasedCovariates.R:544:3',
  'test-GetCohortBasedCovariates.R:555:3',
  'test-GetCohortBasedCovariates.R:566:3', 'test-GetCovariates.R:63:3',
  'test-GetCovariates.R:87:3', 'test-GetCovariates.R:100:3',
  'test-GetCovariates.R:113:3',
  'test-GetCovariatesFromCohortAttributes.R:30:3',
  'test-GetCovariatesFromCohortAttributes.R:51:3',
  'test-GetCovariatesFromCohortAttributes.R:79:3',
  'test-GetCovariatesTemporalSequence.R:81:3',
  'test-GetDefaultCovariates.R:6:3', 'test-HelperFunctions.R:31:3',
  'test-Table1.R:85:3', 'test-Table1.R:146:3'
• dbms == "oracle" is not TRUE (14): 'test-GetCohortBasedCovariates.R:796:3',
  'test-GetCohortBasedCovariates.R:808:3',
  'test-GetCohortBasedCovariates.R:820:3',
  'test-GetCohortBasedCovariates.R:832:3',
  'test-GetCohortBasedCovariates.R:844:3',
  'test-GetCohortBasedCovariates.R:856:3',
  'test-GetCohortBasedCovariates.R:868:3',
  'test-GetCohortBasedCovariates.R:880:3',
  'test-GetCohortBasedCovariates.R:892:3', 'test-query-no-fail.R:162:3',
  'test-query-no-fail.R:343:3', 'test-query-no-fail.R:449:3',
  'test-query-no-fail.R:556:3', 'test-spot-checks.R:204:3'
• dbms == "postgresql" is not TRUE (14):
  'test-GetCohortBasedCovariates.R:578:3',
  'test-GetCohortBasedCovariates.R:590:3',
  'test-GetCohortBasedCovariates.R:602:3',
  'test-GetCohortBasedCovariates.R:614:3',
  'test-GetCohortBasedCovariates.R:626:3',
  'test-GetCohortBasedCovariates.R:638:3',
  'test-GetCohortBasedCovariates.R:650:3',
  'test-GetCohortBasedCovariates.R:662:3',
  'test-GetCohortBasedCovariates.R:674:3', 'test-query-no-fail.R:146:3',
  'test-query-no-fail.R:327:3', 'test-query-no-fail.R:433:3',
  'test-query-no-fail.R:540:3', 'test-spot-checks.R:190:3'
• dbms == "redshift" is not TRUE (14): 'test-GetCohortBasedCovariates.R:905:3',
  'test-GetCohortBasedCovariates.R:917:3',
  'test-GetCohortBasedCovariates.R:929:3',
  'test-GetCohortBasedCovariates.R:941:3',
  'test-GetCohortBasedCovariates.R:953:3',
  'test-GetCohortBasedCovariates.R:965:3',
  'test-GetCohortBasedCovariates.R:977:3',
  'test-GetCohortBasedCovariates.R:989:3',
  'test-GetCohortBasedCovariates.R:1001:3', 'test-query-no-fail.R:170:3',
  'test-query-no-fail.R:351:3', 'test-query-no-fail.R:457:3',
  'test-query-no-fail.R:564:3', 'test-spot-checks.R:211:3'
• dbms == "sql server" is not TRUE (14):
  'test-GetCohortBasedCovariates.R:687:3',
  'test-GetCohortBasedCovariates.R:699:3',
  'test-GetCohortBasedCovariates.R:711:3',
  'test-GetCohortBasedCovariates.R:723:3',
  'test-GetCohortBasedCovariates.R:735:3',
  'test-GetCohortBasedCovariates.R:747:3',
  'test-GetCohortBasedCovariates.R:759:3',
  'test-GetCohortBasedCovariates.R:771:3',
  'test-GetCohortBasedCovariates.R:783:3', 'test-query-no-fail.R:154:3',
  'test-query-no-fail.R:335:3', 'test-query-no-fail.R:441:3',
  'test-query-no-fail.R:548:3', 'test-spot-checks.R:197:3'

[ FAIL 0 | WARN 5 | SKIP 82 | PASS 128 ]
Executing SQL took 0.00774 secs
> 
> proc.time()
   user  system elapsed 
 363.51    7.03  360.82