Last updated on 2026-04-14 09:55:24 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 6.0.1 | 49.44 | 732.43 | 781.87 | OK | |
| r-devel-linux-x86_64-debian-gcc | 6.0.1 | 30.03 | 490.01 | 520.04 | OK | |
| r-devel-linux-x86_64-fedora-clang | 6.0.1 | 99.00 | 725.83 | 824.83 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 6.0.1 | 93.00 | 1368.79 | 1461.79 | OK | |
| r-devel-macos-arm64 | 6.0.1 | 11.00 | 157.00 | 168.00 | OK | |
| r-devel-windows-x86_64 | 6.0.1 | 50.00 | 755.00 | 805.00 | OK | |
| r-patched-linux-x86_64 | 6.0.1 | 40.94 | 695.77 | 736.71 | OK | |
| r-release-linux-x86_64 | 6.0.1 | 45.95 | 700.66 | 746.61 | OK | |
| r-release-macos-arm64 | 6.0.1 | 10.00 | 176.00 | 186.00 | OK | |
| r-release-macos-x86_64 | 6.0.1 | 33.00 | 462.00 | 495.00 | OK | |
| r-release-windows-x86_64 | 6.0.1 | 51.00 | 0.00 | 51.00 | OK | |
| r-oldrel-macos-arm64 | 6.0.1 | 10.00 | 168.00 | 178.00 | OK | |
| r-oldrel-macos-x86_64 | 6.0.1 | 32.00 | 578.00 | 610.00 | OK | |
| r-oldrel-windows-x86_64 | 6.0.1 | 69.00 | 1023.00 | 1092.00 | OK |
Version: 6.0.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [7m/38m]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> test_check("CohortMethod")
Loading required package: CohortMethod
Loading required package: DatabaseConnector
Loading required package: Cyclops
Loading required package: FeatureExtraction
Loading required package: Andromeda
Loading required package: dplyr
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
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: /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/GiBleed_5.3.zip to: /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/GiBleed_5.3.sqlite
Cohorts created in table main.cohort
Initiating cluster consisting only of main thread
Calling getDbCohortMethodData() for targetId 1, comparatorId 2
Fetched cohort total rows in target is 1797, total rows in comparator is 830
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 2.87 secs
Fetched covariates total count is 26893
Fetched outcomes total count is 3106
Calling getDbCohortMethodData() for targetId 1, comparatorId 999
Fetched cohort total rows in target is 1800, total rows in comparator is 0
Constructing features on server
Fetching data from server
Fetching data took 1.83 secs
Fetched covariates total count is 24166
Fetched outcomes total count is 2155
Calling getDbCohortMethodData() for targetId 998, comparatorId 999
Fetched cohort total rows in target is 0, total rows in comparator is 0
Fetched covariates total count is 0
Fetched outcomes total count is 0
Initiating cluster consisting only of main thread
Calling createStudyPopulation() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip for outcomeId 3
Study population has 2627 rows
Calling createStudyPopulation() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip for outcomeId 3
Study population has 1800 rows
Calling createStudyPopulation() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t998_c999.zip for outcomeId 3
Study population has 0 rows
Initiating cluster consisting only of main thread
Calling createPs() for shared PS using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip
Study population has 2627 rows
Removing 6 redundant covariates
Removing 112 infrequent covariates
Normalizing covariates
Tidying covariates took 15.6 secs
Propensity model fitting finished with status OK
Calling createPs() for shared PS using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip
Study population has 1800 rows
Propensity model fitting finished with status Target or comparator cohort empty, so cannot fit model
Calling createPs() for shared PS using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t998_c999.zip
Study population has 0 rows
Propensity model fitting finished with status No subjects in population, so cannot fit model
Initiating cluster consisting only of main thread
Initiating cluster consisting only of main thread
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Ps_l1_s1_p2_t1_c2_o3.rds
Population size after matching is 1660
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Ps_l1_s1_p2_t1_c999_o3.rds
Population size after matching is 0
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Ps_l1_s1_p2_t998_c999_o3.rds
Population size after matching is 0
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Ps_l1_s1_p2_t1_c2_o3.rds
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Ps_l1_s1_p2_t1_c999_o3.rds
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Ps_l1_s1_p2_t1_c2_o3.rds
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Ps_l1_s1_p2_t1_c999_o3.rds
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Ps_l1_s1_p2_t1_c2_o3.rds
Removed 0 (0.0%) rows from the target, 0 (0.0%) rows from the comparator not in overlap.
Trimming removed 0 (0.0%) rows from the target, 3 (0.4%) rows from the comparator in total.
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Ps_l1_s1_p2_t1_c999_o3.rds
Removed 0 (0.0%) rows from the target, 0 (NaN%) rows from the comparator not in overlap.
Trimming removed 0 (0.0%) rows from the target, 0 (NaN%) rows from the comparator in total.
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Ps_l1_s1_p2_t998_c999_o3.rds
Removed 0 (NaN%) rows from the target, 0 (NaN%) rows from the comparator not in overlap.
Trimming removed 0 (NaN%) rows from the target, 0 (NaN%) rows from the comparator in total.
Initiating cluster consisting only of main thread
Computing shared balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip
Study population has 2627 rows
Population size after matching is 1660
Computing shared balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip
Study population has 1800 rows
Population size after matching is 0
Computing shared balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t998_c999.zip
Study population has 0 rows
Population size after matching is 0
Computing shared balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip
Study population has 2627 rows
Computing shared balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip
Study population has 1800 rows
Computing shared balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip
Study population has 2627 rows
Computing shared balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip
Study population has 1800 rows
Computing shared balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip
Study population has 2627 rows
Removed 0 (0.0%) rows from the target, 0 (0.0%) rows from the comparator not in overlap.
Trimming removed 0 (0.0%) rows from the target, 3 (0.4%) rows from the comparator in total.
Computing shared balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip
Study population has 1800 rows
Removed 0 (0.0%) rows from the target, 0 (NaN%) rows from the comparator not in overlap.
Trimming removed 0 (0.0%) rows from the target, 0 (NaN%) rows from the comparator in total.
Computing shared balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t998_c999.zip
Study population has 0 rows
Removed 0 (NaN%) rows from the target, 0 (NaN%) rows from the comparator not in overlap.
Trimming removed 0 (NaN%) rows from the target, 0 (NaN%) rows from the comparator in total.
Initiating cluster consisting only of main thread
Initiating cluster consisting only of main thread
Computing balance balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c2_s2_o3.rds
Computing balance balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c999_s2_o3.rds
Computing balance balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t998_c999.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t998_c999_s2_o3.rds
Computing balance balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c2_s3_o3.rds
Computing balance balance using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c999_s3_o3.rds
Initiating cluster consisting only of main thread
Initiating cluster consisting only of main thread
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StudyPop_l1_s1_t1_c2_o3.rds
Using prior: None
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: OK
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StudyPop_l1_s1_t1_c999_o3.rds
Outcome model fitting status is: NO STRATA WITH BOTH TARGET, COMPARATOR, AS WELL AS THE OUTCOME. CANNOT FIT
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t998_c999.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StudyPop_l1_s1_t998_c999_o3.rds
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c2_s2_o3.rds
Using prior: None
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: OK
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c999_s2_o3.rds
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t998_c999.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t998_c999_s2_o3.rds
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c2_s3_o3.rds
Using prior: None
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: OK
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c999_s3_o3.rds
Outcome model fitting status is: NO STRATA WITH BOTH TARGET, COMPARATOR, AS WELL AS THE OUTCOME. CANNOT FIT
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c2_s4_o3.rds
Using prior: None
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Performing bootstrap estimation with 200 replicates [seed = 1]
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Using 1 thread(s)
Outcome model fitting status is: OK
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c999_s4_o3.rds
Outcome model fitting status is: NO STRATA WITH BOTH TARGET, COMPARATOR, AS WELL AS THE OUTCOME. CANNOT FIT
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Prefilter_l1_t1_c2_p2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c2_s2_o3.rds
Using prior: None
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: OK
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Prefilter_l1_t1_c999_p2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c999_s2_o3.rds
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Prefilter_l1_t998_c999_p2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t998_c999_s2_o3.rds
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c2_s5_o3.rds
Using prior: None
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: OK
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t1_c999_s5_o3.rds
Outcome model fitting status is: NO STRATA WITH BOTH TARGET, COMPARATOR, AS WELL AS THE OUTCOME. CANNOT FIT
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t998_c999.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/StratPop_l1_s1_p2_t998_c999_s5_o3.rds
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
Initiating cluster consisting only of main thread
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip for outcomeID 4
Study population has 2627 rows
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: POOR_BLR_STEP
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip for outcomeID 4
Study population has 1800 rows
Outcome model fitting status is: NO STRATA WITH BOTH TARGET, COMPARATOR, AS WELL AS THE OUTCOME. CANNOT FIT
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t998_c999.zip for outcomeID 4
Study population has 0 rows
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip for outcomeID 4
Study population has 2627 rows
Population size after matching is 1660
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: POOR_BLR_STEP
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip for outcomeID 4
Study population has 1800 rows
Population size after matching is 0
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t998_c999.zip for outcomeID 4
Study population has 0 rows
Population size after matching is 0
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip for outcomeID 4
Study population has 2627 rows
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: POOR_BLR_STEP
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip for outcomeID 4
Study population has 1800 rows
Outcome model fitting status is: NO STRATA WITH BOTH TARGET, COMPARATOR, AS WELL AS THE OUTCOME. CANNOT FIT
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip for outcomeID 4
Study population has 2627 rows
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: POOR_BLR_STEP
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip for outcomeID 4
Study population has 1800 rows
Outcome model fitting status is: NO STRATA WITH BOTH TARGET, COMPARATOR, AS WELL AS THE OUTCOME. CANNOT FIT
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Prefilter_l1_t1_c2_p2.zip for outcomeID 4
Study population has 2627 rows
Population size after matching is 1660
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: POOR_BLR_STEP
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Prefilter_l1_t1_c999_p2.zip for outcomeID 4
Study population has 1800 rows
Population size after matching is 0
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/Prefilter_l1_t998_c999_p2.zip for outcomeID 4
Study population has 0 rows
Population size after matching is 0
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c2.zip for outcomeID 4
Study population has 2627 rows
Removed 0 (0.0%) rows from the target, 0 (0.0%) rows from the comparator not in overlap.
Trimming removed 0 (0.0%) rows from the target, 3 (0.4%) rows from the comparator in total.
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: POOR_BLR_STEP
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t1_c999.zip for outcomeID 4
Study population has 1800 rows
Removed 0 (0.0%) rows from the target, 0 (NaN%) rows from the comparator not in overlap.
Trimming removed 0 (0.0%) rows from the target, 0 (NaN%) rows from the comparator in total.
Outcome model fitting status is: NO STRATA WITH BOTH TARGET, COMPARATOR, AS WELL AS THE OUTCOME. CANNOT FIT
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2583f909/CmData_l1_t998_c999.zip for outcomeID 4
Study population has 0 rows
Removed 0 (NaN%) rows from the target, 0 (NaN%) rows from the comparator not in overlap.
Trimming removed 0 (NaN%) rows from the target, 0 (NaN%) rows from the comparator in total.
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
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Initiating cluster consisting only of main thread
Initiating cluster consisting only of main thread
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Initiating cluster consisting only of main thread
Preparing KM plot for target_comparator 894409308, outcome 3, analysis 1
Preparing KM plot for target_comparator 294999173, outcome 3, analysis 1
Preparing KM plot for target_comparator 518658498, outcome 3, analysis 1
Preparing KM plot for target_comparator 894409308, outcome 3, analysis 2
Preparing KM plot for target_comparator 294999173, outcome 3, analysis 2
Preparing KM plot for target_comparator 518658498, outcome 3, analysis 2
Preparing KM plot for target_comparator 894409308, outcome 3, analysis 3
Preparing KM plot for target_comparator 294999173, outcome 3, analysis 3
Preparing KM plot for target_comparator 894409308, outcome 3, analysis 4
Preparing KM plot for target_comparator 294999173, outcome 3, analysis 4
Preparing KM plot for target_comparator 894409308, outcome 3, analysis 5
Preparing KM plot for target_comparator 294999173, outcome 3, analysis 5
Preparing KM plot for target_comparator 518658498, outcome 3, analysis 5
Preparing KM plot for target_comparator 894409308, outcome 3, analysis 6
Preparing KM plot for target_comparator 294999173, outcome 3, analysis 6
Preparing KM plot for target_comparator 518658498, outcome 3, analysis 6
|
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Initiating cluster consisting only of main thread
Calling getDbCohortMethodData() for targetId 1, comparatorId 2
Fetched cohort total rows in target is 1797, total rows in comparator is 830
Sending temp tables to server
Constructing features on server
Fetching data from server
Fetching data took 3.66 secs
Fetched covariates total count is 5254
Fetched outcomes total count is 3106
Initiating cluster consisting only of main thread
Calling createStudyPopulation() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499dc45256d/CmData_l1_t1_c2.zip for outcomeId 3
Study population has 2627 rows
Calling createStudyPopulation() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499dc45256d/CmData_l1_t1_c2.zip for outcomeId 4
Study population has 2627 rows
Initiating cluster consisting only of main thread
Calling createPs() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499dc45256d/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499dc45256d/StudyPop_l1_s1_t1_c2_o3.rds
Removing 1 redundant covariates
Removing 0 infrequent covariates
Normalizing covariates
Tidying covariates took 1.79 mins
Propensity model fitting finished with status OK
Calling createPs() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499dc45256d/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499dc45256d/StudyPop_l1_s1_t1_c2_o4.rds
Removing 1 redundant covariates
Removing 0 infrequent covariates
Normalizing covariates
Tidying covariates took 1.13 mins
Propensity model fitting finished with status OK
Initiating cluster consisting only of main thread
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499dc45256d/Ps_l1_s1_p1_t1_c2_o3.rds
Population size after matching is 1660
Initiating cluster consisting only of main thread
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499dc45256d/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499dc45256d/StratPop_l1_s1_p1_t1_c2_s1_o3.rds
Using prior: None
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: OK
Initiating cluster consisting only of main thread
Calling createStudyPopulation(), performing matching etc., and calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499dc45256d/CmData_l1_t1_c2.zip for outcomeID 4
Study population has 2627 rows
Population size after matching is 1660
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using prior: None
Warning: BLR gradient is ill-conditioned
Enforcing convergence!
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: POOR_BLR_STEP
|
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Initiating cluster consisting only of main thread
Initiating cluster consisting only of main thread
Calling getDbCohortMethodData() for targetId 1, comparatorId 2
Fetched cohort total rows in target is 1800, total rows in comparator is 830
Constructing features on server
Fetching data from server
Fetching data took 7.05 secs
Fetched covariates total count is 2730
Fetched outcomes total count is 479
Initiating cluster consisting only of main thread
Calling createStudyPopulation() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2a373191/CmData_l1_t1_c2.zip for outcomeId 3
Study population has 2630 rows
Initiating cluster consisting only of main thread
Calling createPs() for shared PS using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2a373191/CmData_l1_t1_c2.zip
Study population has 2630 rows
Removing 0 redundant covariates
Removing 10 infrequent covariates
Normalizing covariates
Tidying covariates took 4.16 mins
Propensity model fitting finished with status High correlation between covariate(s) and treatment detected. Perhaps you forgot to exclude part of the exposure definition from the covariates?
Initiating cluster consisting only of main thread
Initiating cluster consisting only of main thread
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2a373191/Ps_l1_s1_p1_t1_c2_o3.rds
Population size after matching is 0
Initiating cluster consisting only of main thread
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2a373191/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d2a373191/StratPop_l1_s1_p1_t1_c2_s1_o3.rds
Outcome model fitting status is: NO SUBJECTS IN POPULATION, CANNOT FIT
|
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Initiating cluster consisting only of main thread
|
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Initiating cluster consisting only of main thread
Preparing KM plot for target_comparator 894409308, outcome 3, analysis 1
|
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Initiating cluster consisting only of main thread
Calling getDbCohortMethodData() for targetId 1, comparatorId 2
Fetched cohort total rows in target is 1800, total rows in comparator is 830
Constructing features on server
Fetching data from server
Fetching data took 3.95 secs
Fetched covariates total count is 5260
Fetched outcomes total count is 479
Initiating cluster consisting only of main thread
Calling createStudyPopulation() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d57407d8d/CmData_l1_t1_c2.zip for outcomeId 3
Study population has 2630 rows
Initiating cluster consisting only of main thread
Calling createPs() for shared PS using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d57407d8d/CmData_l1_t1_c2.zip
Study population has 2630 rows
Removing 1 redundant covariates
Removing 0 infrequent covariates
Normalizing covariates
Tidying covariates took 17.2 secs
Propensity model fitting finished with status OK
Initiating cluster consisting only of main thread
Initiating cluster consisting only of main thread
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d57407d8d/Ps_l1_s1_p1_t1_c2_o3.rds
Population size after matching is 1660
Performing matching etc., using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d57407d8d/Ps_l1_s1_p1_t1_c2_o3.rds
Initiating cluster consisting only of main thread
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d57407d8d/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d57407d8d/StratPop_l1_s1_p1_t1_c2_s1_o3.rds
Using prior: None
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: OK
Calling fitOutcomeModel() using /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d57407d8d/CmData_l1_t1_c2.zip and /tmp/RtmpeWyP4D/working_dir/RtmpBuQTDK/cmData7499d57407d8d/StratPop_l1_s1_p1_t1_c2_s2_o3.rds
Using prior: None
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Using 1 thread(s)
Outcome model fitting status is: OK
|
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|
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Initiating cluster consisting only of main thread
Initiating cluster consisting only of main thread
Calling getDbCohortMethodData() for targetId 1, comparatorId 2
Fetched cohort total rows in target is 1800, total rows in comparator is 830
Constructing features on server
Fetching data from server
Fetching data took 4.9 secs
Fetched covariates total count is 5260
Fetched outcomes total count is 479
Calling getDbCohortMethodData() for targetId 1, comparatorId 2
Flavor: r-devel-linux-x86_64-fedora-clang