Last updated on 2026-07-08 01:52:59 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.3 | 80.90 | 236.76 | 317.66 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 1.0.3 | 54.95 | 142.97 | 197.92 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.0.3 | 115.00 | 487.96 | 602.96 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.0.3 | 154.00 | 479.89 | 633.89 | OK | |
| r-devel-windows-x86_64 | 1.0.3 | 93.00 | 424.00 | 517.00 | OK | |
| r-patched-linux-x86_64 | 1.0.3 | 73.52 | 283.35 | 356.87 | OK | |
| r-release-linux-x86_64 | 1.0.3 | 79.75 | 282.31 | 362.06 | OK | |
| r-release-macos-arm64 | 1.0.3 | 16.00 | 70.00 | 86.00 | OK | |
| r-release-macos-x86_64 | 1.0.3 | 50.00 | 304.00 | 354.00 | OK | |
| r-release-windows-x86_64 | 1.0.3 | 95.00 | 428.00 | 523.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.3 | 14.00 | 65.00 | 79.00 | OK | |
| r-oldrel-macos-x86_64 | 1.0.3 | 61.00 | 355.00 | 416.00 | OK | |
| r-oldrel-windows-x86_64 | 1.0.3 | 118.00 | 231.00 | 349.00 | OK |
Version: 1.0.3
Check: examples
Result: ERROR
Running examples in ‘pprof-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: SM_output.logis_cre
> ### Title: Calculate direct/indirect standardized ratios/rates from a
> ### fitted 'logis_cre' object
> ### Aliases: SM_output.logis_cre
>
> ### ** Examples
>
> data(ExampleDataBinary)
> outcome <- ExampleDataBinary$Y
> covar <- ExampleDataBinary$Z
> ProvID <- ExampleDataBinary$ProvID
> data <- data.frame(outcome, ProvID, covar)
> outcome.char <- colnames(data)[1]
> ProvID.char <- colnames(data)[2]
> wb.char <- c("z1", "z2")
> other.char <- c("z3", "z4", "z5")
> fit_cre <- logis_cre(data = data, Y.char = outcome.char, ProvID.char = ProvID.char,
+ wb.char = wb.char, other.char = other.char)
Error: Downdated VtV is not positive definite
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc
Version: 1.0.3
Check: tests
Result: ERROR
Running ‘testthat.R’ [72s/108s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(pprof)
>
> test_check("pprof")
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: Y, Z, and ProvID.
Saving _problems/test-SM_output-99.R
Saving _problems/test-SM_output-125.R
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: Y, Z, and ProvID.
OMP: Warning #96: Cannot form a team with 4 threads, using 3 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
Saving _problems/test-confint-165.R
Input format: Y, Z, and ProvID.
Input format: data, Y.char, Z.char, and ProvID.char.
Input format: formula and data.
Input format: Y, Z, and ProvID.
Input format: data, Y.char, Z.char, and ProvID.char.
Input format: formula and data.
Saving _problems/test-logis_cre-13.R
Input format: Y, Z, and ProvID.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: data, Y.char, Z.char, and ProvID.char.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: formula and data.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: Y, Z, and ProvID.
Input format: data, Y.char, Z.char, and ProvID.char.
Input format: formula and data.
Saving _problems/test-logis_re-15.R
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: Y, Z, and ProvID.
Saving _problems/test-summary-90.R
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: Y, Z, and ProvID.
Saving _problems/test-test-106.R
Saving _problems/test-test-129.R
[ FAIL 8 | WARN 0 | SKIP 0 | PASS 135 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-SM_output.R:99:3'): SM_output.logis_re function behaves correctly ──
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_re(Y = Y, Z = Z, ProvID = ProvID) at test-SM_output.R:99:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-SM_output.R:125:3'): SM_output.logis_cre function behaves correctly ──
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_cre(...) at test-SM_output.R:125:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-confint.R:165:3'): test.logis_cre function behaves correctly ───
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_cre(...) at test-confint.R:165:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-logis_cre.R:13:3'): logis_cre function behaves correctly ───────
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_cre(...) at test-logis_cre.R:13:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-logis_re.R:15:3'): logis_re function behaves correctly ─────────
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_re(formula, data) at test-logis_re.R:15:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-summary.R:90:3'): summary.logis_re function behaves correctly ──
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_re(Y = Y, Z = Z, ProvID = ProvID) at test-summary.R:90:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-test.R:106:3'): test.logis_re function behaves correctly ───────
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_re(Y = Y, Z = Z, ProvID = ProvID) at test-test.R:106:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-test.R:129:3'): test.logis_cre function behaves correctly ──────
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_cre(...) at test-test.R:129:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
[ FAIL 8 | WARN 0 | SKIP 0 | PASS 135 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.0.3
Check: tests
Result: ERROR
Running ‘testthat.R’ [33s/40s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(pprof)
>
> test_check("pprof")
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: Y, Z, and ProvID.
Saving _problems/test-SM_output-99.R
Saving _problems/test-SM_output-125.R
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: Y, Z, and ProvID.
Saving _problems/test-confint-165.R
Input format: Y, Z, and ProvID.
Input format: data, Y.char, Z.char, and ProvID.char.
Input format: formula and data.
Input format: Y, Z, and ProvID.
Input format: data, Y.char, Z.char, and ProvID.char.
Input format: formula and data.
Input format: Y, Z, and ProvID.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: data, Y.char, Z.char, and ProvID.char.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: formula and data.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: Y, Z, and ProvID.
Saving _problems/test-logis_re-13.R
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
Input format: Y, Z, and ProvID.
3 out of 100 remaining providers with no events.
0 out of 100 remaining providers with all events.
After screening, 38.77% of all records exhibit occurrences of events (Y = 1)
Implementing SerBIN algorithm (Rcpp) for fixed provider effects model ...
Iter 1: Minimum criterion across all checks is 5.022e-01;
Iter 2: Minimum criterion across all checks is 1.422e-01;
Iter 3: Minimum criterion across all checks is 3.528e-02;
Iter 4: Minimum criterion across all checks is 5.671e-03;
Iter 5: Minimum criterion across all checks is 1.214e-03;
Iter 6: Minimum criterion across all checks is 2.151e-04;
Iter 7: Minimum criterion across all checks is 6.647e-05;
Iter 8: Minimum criterion across all checks is 7.565e-06;
serBIN (Rcpp) algorithm converged after 8 iterations!
Setting levels: control = 0, case = 1
Setting direction: controls < cases
Input format: Y, Z, and ProvID.
Saving _problems/test-test-106.R
Saving _problems/test-test-129.R
[ FAIL 6 | WARN 0 | SKIP 0 | PASS 142 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-SM_output.R:99:3'): SM_output.logis_re function behaves correctly ──
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_re(Y = Y, Z = Z, ProvID = ProvID) at test-SM_output.R:99:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-SM_output.R:125:3'): SM_output.logis_cre function behaves correctly ──
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_cre(...) at test-SM_output.R:125:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-confint.R:165:3'): test.logis_cre function behaves correctly ───
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_cre(...) at test-confint.R:165:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-logis_re.R:13:3'): logis_re function behaves correctly ─────────
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_re(Y = Y, Z = Z, ProvID = ProvID) at test-logis_re.R:13:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-test.R:106:3'): test.logis_re function behaves correctly ───────
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_re(Y = Y, Z = Z, ProvID = ProvID) at test-test.R:106:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
── Error ('test-test.R:129:3'): test.logis_cre function behaves correctly ──────
<Rcpp::exception/C++Error/error/condition>
Error: Downdated VtV is not positive definite
Backtrace:
▆
1. └─pprof::logis_cre(...) at test-test.R:129:3
2. └─lme4::glmer(...)
3. └─lme4::optimizeGlmer(...)
4. └─lme4:::optwrap(...)
5. ├─base::withCallingHandlers(...)
6. ├─base::do.call(optfun, arglist)
7. └─lme4 (local) `<fn>`(...)
8. ├─nM$newf(fn(nM$xeval()))
9. │ └─base::stopifnot(length(value <- as.numeric(value)) == 1L)
10. └─lme4 (local) fn(nM$xeval())
11. └─lme4 (local) pwrssUpdate(...)
[ FAIL 6 | WARN 0 | SKIP 0 | PASS 142 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc