R Under development (unstable) (2025-05-04 r88189 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\2025_05_08_16_45_17_13876\RtmpAL43L2/GiBleed_5.3.zip to: D:\temp\2025_05_08_16_45_17_13876\RtmpAL43L2/GiBleed_5.3.sqlite
Connecting using SQLite driver
Executing SQL took 0.0187 secs
Cohorts created in table main.cohort
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.554 secs
Constructing features on server
Fetching data from server
Fetching data took 0.322 secs
# CovariateData object

Cohorts of interest IDs: 1, 2

Inherits from Andromeda:
# Andromeda object
# Physical location:  D:\temp\2025_05_08_16_45_17_13876\RtmpAL43L2\file1548855707e0c.duckdb

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 0.278 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.446 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.273 secs
Constructing features on server
Fetching data from server
Fetching data took 0.264 secs
Constructing features on server
Fetching data from server
Fetching data took 0.278 secs
Constructing features on server
Fetching data from server
Fetching data took 0.27 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.333 secs
Constructing features on server
Fetching data from server
Fetching data took 0.273 secs
Aggregating covariates took 1.03 secs
Constructing features on server
Fetching data from server
Fetching data took 0.273 secs
Constructing features on server
Fetching data from server
Fetching data took 0.273 secs
Constructing features on server
Fetching data from server
Fetching data took 0.268 secs
Constructing features on server
Fetching data from server
Fetching data took 0.268 secs
Constructing features on server
Fetching data from server
Fetching data took 0.328 secs
Constructing features on server
Fetching data from server
Fetching data took 0.297 secs
Constructing features on server
Fetching data from server
Fetching data took 0.345 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.374 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.409 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.281 secs
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 0.341 secs
Tidying covariates took 0.444 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 0.327 secs
Removing 0 redundant covariate ID - time ID combinations
Removing 0 infrequent covariates
Normalizing covariates
Tidying covariates took 1.77 secs
[ FAIL 0 | WARN 7 | SKIP 82 | PASS 128 ]

══ Skipped tests (82) ══════════════════════════════════════════════════════════
• On CRAN (26): 'test-Aggregation.R:6:3', 'test-CompareCohorts.R:41:3',
  '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:83:3',
  '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:344:3', 'test-query-no-fail.R:450:3',
  'test-query-no-fail.R:558:3', '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:328:3', 'test-query-no-fail.R:434:3',
  'test-query-no-fail.R:542:3', '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:352:3', 'test-query-no-fail.R:458:3',
  'test-query-no-fail.R:566:3', '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:336:3', 'test-query-no-fail.R:442:3',
  'test-query-no-fail.R:550:3', 'test-spot-checks.R:197:3'

[ FAIL 0 | WARN 7 | SKIP 82 | PASS 128 ]
Executing SQL took 0.00545 secs
> 
> proc.time()
   user  system elapsed 
 228.71    6.45  223.75