Last updated on 2026-01-18 06:49:56 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.3.1 | 7.65 | 505.18 | 512.83 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.3.1 | 6.56 | 346.81 | 353.37 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.3.1 | 16.00 | 248.59 | 264.59 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 0.3.1 | 16.00 | 261.41 | 277.41 | ERROR | |
| r-devel-windows-x86_64 | 0.3.1 | 14.00 | 539.00 | 553.00 | OK | |
| r-patched-linux-x86_64 | 0.3.1 | 9.10 | 480.06 | 489.16 | OK | |
| r-release-linux-x86_64 | 0.3.1 | 7.79 | 474.36 | 482.15 | OK | |
| r-release-macos-arm64 | 0.3.1 | OK | ||||
| r-release-macos-x86_64 | 0.3.1 | 8.00 | 657.00 | 665.00 | OK | |
| r-release-windows-x86_64 | 0.3.1 | 14.00 | 540.00 | 554.00 | OK | |
| r-oldrel-macos-arm64 | 0.3.1 | OK | ||||
| r-oldrel-macos-x86_64 | 0.3.1 | 7.00 | 725.00 | 732.00 | OK | |
| r-oldrel-windows-x86_64 | 0.3.1 | 16.00 | 667.00 | 683.00 | OK |
Version: 0.3.1
Check: examples
Result: ERROR
Running examples in ‘nlmixr2lib-Ex.R’ failed
The error most likely occurred in:
> ### Name: addBaseline1exp
> ### Title: Add baseline that decays exponential with time
> ### Aliases: addBaseline1exp
>
> ### ** Examples
>
> readModelDb("PK_2cmt_no_depot") |>
+ addDirectLin() |>
+ convertQuad() |>
+ addBaseline1exp()
Error: 'ui' needs to be a rxUi model
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 0.3.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [90s/191s]
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/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(nlmixr2lib)
>
> test_check("nlmixr2lib")
Saving _problems/test-addBaseline-15.R
Saving _problems/test-addBaseline-34.R
Saving _problems/test-addBaseline-51.R
Saving _problems/test-addBaseline-68.R
Saving _problems/test-addDepot-4.R
Saving _problems/test-addDepot-37.R
Saving _problems/test-addDirectLin-15.R
Saving _problems/test-addEffectCmt-24.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addTransit-2.R
Saving _problems/test-addTransit-18.R
Saving _problems/test-addTransit-28.R
Saving _problems/test-addTransit-40.R
Saving _problems/test-addWeibullAbs-46.R
i add covariate `k`
! remove population parameter `uR0`
i add covariate `R`
Saving _problems/test-convertLogLin-5.R
Saving _problems/test-convertQuad-5.R
Saving _problems/test-removeDepot-7.R
Saving _problems/test-removeTransit-5.R
Saving _problems/test-removeTransit-13.R
Saving _problems/test-removeTransit-21.R
Saving _problems/test-removeTransit-28.R
Saving _problems/test-transPk-4.R
Saving _problems/test-transPk-27.R
Saving _problems/test-transPk-46.R
Saving _problems/test-transPk-61.R
Saving _problems/test-transPk-82.R
[ FAIL 61 | WARN 0 | SKIP 22 | PASS 156 ]
══ Skipped tests (22) ══════════════════════════════════════════════════════════
• {qs} is not installed. (22): 'test-addEta.R:2:3', 'test-addEta.R:101:3',
'test-addEta.R:120:3', 'test-addEta.R:151:3', 'test-addEta.R:170:3',
'test-addEta.R:178:3', 'test-addProp.R:17:1', 'test-addResErr.R:3:3',
'test-addResErr.R:56:3', 'test-addResErr.R:65:3', 'test-addResErr.R:84:3',
'test-addResErr.R:103:3', 'test-addResErr.R:128:3',
'test-addWeibullAbs.R:4:3', 'test-addWeibullAbs.R:28:3',
'test-readModelDb.R:2:3', 'test-removeDepot.R:11:3',
'test-removeDepot.R:22:3', 'test-removeDepot.R:31:3',
'test-removeDepot.R:38:3', 'test-searchReplace.R:2:3',
'test-updateOncologyXenograftSimeoni2004.R:2:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-addBaseline.R:15:3'): Test addBaselineConst function ───────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addDirectLin(readModelDb("PK_2cmt_no_depot")) at test-addBaseline.R:15:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addBaseline.R:34:3'): Test addBaselineExp function ─────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addDirectLin(readModelDb("PK_3cmt")) at test-addBaseline.R:34:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addBaseline.R:51:3'): Test addBaseline1exp function ────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addDirectLin(readModelDb("PK_2cmt")) at test-addBaseline.R:51:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addBaseline.R:68:3'): Test addBaselineLin function ─────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addDirectLin(readModelDb("PK_1cmt")) at test-addBaseline.R:68:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addDepot.R:2:3'): addDepot adds depot ──────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─base::suppressMessages(model <- removeDepot(readModelDb("PK_1cmt_des"))) at test-addDepot.R:2:3
2. │ └─base::withCallingHandlers(...)
3. └─nlmixr2lib::removeDepot(readModelDb("PK_1cmt_des"))
4. └─rxode2::assertRxUi(ui)
── Error ('test-addDepot.R:35:3'): addDepot adds other than default agruments ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─base::suppressMessages(model <- removeDepot(readModelDb("PK_1cmt_des"))) at test-addDepot.R:35:3
2. │ └─base::withCallingHandlers(...)
3. └─nlmixr2lib::removeDepot(readModelDb("PK_1cmt_des"))
4. └─rxode2::assertRxUi(ui)
── Error ('test-addDirectLin.R:14:3'): direct linear function creation ─────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addDirectLin(readModelDb("PK_3cmt_des")) at test-addDirectLin.R:14:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addEffectCmt.R:23:3'): Test addEffectCmtLin ────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addEffectCmtLin(readModelDb("PK_3cmt_des")) at test-addEffectCmt.R:23:3
2. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_1cmt_des; stim=in ───
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_1cmt_des; inhib=in ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_1cmt_des; stim=in ──────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_1cmt_des; inhib=in ─────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_1cmt_des; stim=in, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_1cmt_des; inhib=in, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_2cmt_des; stim=in ───
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_2cmt_des; inhib=in ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_2cmt_des; stim=in ──────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_2cmt_des; inhib=in ─────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_2cmt_des; stim=in, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_2cmt_des; inhib=in, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_3cmt_des; stim=in ───
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_3cmt_des; inhib=in ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_3cmt_des; stim=in ──────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_3cmt_des; inhib=in ─────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_3cmt_des; stim=in, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_3cmt_des; inhib=in, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_1cmt_des; stim=out ──
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_1cmt_des; inhib=out ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_1cmt_des; stim=out ─────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_1cmt_des; inhib=out ────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_1cmt_des; stim=out, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_1cmt_des; inhib=out, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_2cmt_des; stim=out ──
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_2cmt_des; inhib=out ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_2cmt_des; stim=out ─────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_2cmt_des; inhib=out ────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_2cmt_des; stim=out, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_2cmt_des; inhib=out, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_3cmt_des; stim=out ──
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_3cmt_des; inhib=out ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_3cmt_des; stim=out ─────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_3cmt_des; inhib=out ────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_3cmt_des; stim=out, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_3cmt_des; inhib=out, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Error ('test-addTransit.R:2:3'): addTransit adds transit compartment ────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 3) at test-addTransit.R:2:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addTransit.R:18:3'): addTransit throws an error with invalid 'central' ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addTransit.R:18:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addTransit(...)
8. └─rxode2::assertRxUi(ui)
── Error ('test-addTransit.R:28:3'): addTransit adds transit compartments correctly with 'depot' ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 3) at test-addTransit.R:28:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addTransit.R:40:3'): addTransit does not add transit compartments without 'depot' ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_warning(...) at test-addTransit.R:40:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addTransit(readModelDb("PK_2cmt_no_depot"), 1)
8. └─rxode2::assertRxUi(ui)
── Error ('test-addWeibullAbs.R:46:3'): Test addWeibullAbs function removes transit ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─rxode2::rxode2(readModelDb("PK_1cmt_des")) %>% addTransit(3) at test-addWeibullAbs.R:46:3
2. └─nlmixr2lib::addTransit(., 3)
3. └─rxode2::assertRxUi(ui)
── Error ('test-convertLogLin.R:3:4'): convertLogLin ───────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::convertLogLin(addDirectLin(readModelDb("PK_2cmt_no_depot"))) at test-convertLogLin.R:3:4
2. └─rxode2::assertRxUi(ui)
── Error ('test-convertQuad.R:3:4'): convertQuad ───────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::convertQuad(...) at test-convertQuad.R:3:4
2. └─rxode2::assertRxUi(ui)
── Error ('test-removeDepot.R:7:3'): removeDepot throws error in model with invalid central compartment ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-removeDepot.R:7:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::removeDepot(readModelDb("PK_1cmt_des"), "cent", "depot")
8. └─rxode2::assertRxUi(ui)
── Error ('test-removeTransit.R:5:3'): removeTransit removes transit compartment ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 1) at test-removeTransit.R:5:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-removeTransit.R:13:3'): removeTransit removes ktr in model block ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 1) at test-removeTransit.R:13:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-removeTransit.R:21:3'): removeTransit modifies ODE for central compartment ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 1) at test-removeTransit.R:21:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-removeTransit.R:28:3'): removeTransit removes lktr in ini block ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 1) at test-removeTransit.R:28:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-transPk.R:3:3'): transPk -- k ──────────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::pkTrans(readModelDb("PK_3cmt_des"), "k") at test-transPk.R:3:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-transPk.R:25:3'): transPk -- vss ───────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-transPk.R:25:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::pkTrans(readModelDb("PK_3cmt_des"), "vss")
8. └─rxode2::assertRxUi(ui)
── Error ('test-transPk.R:44:3'): transPk -- aob ───────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-transPk.R:44:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::pkTrans(readModelDb("PK_3cmt_des"), "aob")
8. └─rxode2::assertRxUi(ui)
── Error ('test-transPk.R:60:3'): transPk --k21 ────────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::pkTrans(readModelDb("PK_3cmt_des"), "k21") at test-transPk.R:60:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-transPk.R:81:3'): transPk -- alpha ─────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::pkTrans(readModelDb("PK_3cmt_des"), "alpha") at test-transPk.R:81:3
2. └─rxode2::assertRxUi(ui)
[ FAIL 61 | WARN 0 | SKIP 22 | PASS 156 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.3.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘Grimm_2023.Rmd’ using rmarkdown
Quitting from Grimm_2023.Rmd:30-54 [model-setup-trontinemab]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `loadNamespace()`:
! there is no package called 'qs'
---
Backtrace:
▆
1. ├─nlmixr2lib::readModelDb("Grimm_2023_trontinemab")
2. └─base::loadNamespace(x)
3. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
4. └─base (local) withOneRestart(expr, restarts[[1L]])
5. └─base (local) doWithOneRestart(return(expr), restart)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'Grimm_2023.Rmd' failed with diagnostics:
there is no package called 'qs'
--- failed re-building ‘Grimm_2023.Rmd’
--- re-building ‘Kyhl_2016_nalmefene.Rmd’ using rmarkdown
Quitting from Kyhl_2016_nalmefene.Rmd:31-62 [model-setup-nalmefene]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `loadNamespace()`:
! there is no package called 'qs'
---
Backtrace:
▆
1. ├─nlmixr2lib::readModelDb("Kyhl_2016_nalmefene")
2. └─base::loadNamespace(x)
3. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
4. └─base (local) withOneRestart(expr, restarts[[1L]])
5. └─base (local) doWithOneRestart(return(expr), restart)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'Kyhl_2016_nalmefene.Rmd' failed with diagnostics:
there is no package called 'qs'
--- failed re-building ‘Kyhl_2016_nalmefene.Rmd’
--- re-building ‘create-model-library.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘create-model-library.Rmd’
--- re-building ‘list-of-models.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘list-of-models.Rmd’
SUMMARY: processing the following files failed:
‘Grimm_2023.Rmd’ ‘Kyhl_2016_nalmefene.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 0.3.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [87s/157s]
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/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(nlmixr2lib)
>
> test_check("nlmixr2lib")
Saving _problems/test-addBaseline-15.R
Saving _problems/test-addBaseline-34.R
Saving _problems/test-addBaseline-51.R
Saving _problems/test-addBaseline-68.R
Saving _problems/test-addDepot-4.R
Saving _problems/test-addDepot-37.R
Saving _problems/test-addDirectLin-15.R
Saving _problems/test-addEffectCmt-24.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addIndirect-14.R
Saving _problems/test-addIndirect-17.R
Saving _problems/test-addIndirect-20.R
Saving _problems/test-addIndirect-23.R
Saving _problems/test-addIndirect-26.R
Saving _problems/test-addIndirect-29.R
Saving _problems/test-addTransit-2.R
Saving _problems/test-addTransit-18.R
Saving _problems/test-addTransit-28.R
Saving _problems/test-addTransit-40.R
Saving _problems/test-addWeibullAbs-46.R
i add covariate `k`
! remove population parameter `uR0`
i add covariate `R`
Saving _problems/test-convertLogLin-5.R
Saving _problems/test-convertQuad-5.R
Saving _problems/test-removeDepot-7.R
Saving _problems/test-removeTransit-5.R
Saving _problems/test-removeTransit-13.R
Saving _problems/test-removeTransit-21.R
Saving _problems/test-removeTransit-28.R
Saving _problems/test-transPk-4.R
Saving _problems/test-transPk-27.R
Saving _problems/test-transPk-46.R
Saving _problems/test-transPk-61.R
Saving _problems/test-transPk-82.R
[ FAIL 61 | WARN 0 | SKIP 22 | PASS 156 ]
══ Skipped tests (22) ══════════════════════════════════════════════════════════
• {qs} is not installed. (22): 'test-addEta.R:2:3', 'test-addEta.R:101:3',
'test-addEta.R:120:3', 'test-addEta.R:151:3', 'test-addEta.R:170:3',
'test-addEta.R:178:3', 'test-addProp.R:17:1', 'test-addResErr.R:3:3',
'test-addResErr.R:56:3', 'test-addResErr.R:65:3', 'test-addResErr.R:84:3',
'test-addResErr.R:103:3', 'test-addResErr.R:128:3',
'test-addWeibullAbs.R:4:3', 'test-addWeibullAbs.R:28:3',
'test-readModelDb.R:2:3', 'test-removeDepot.R:11:3',
'test-removeDepot.R:22:3', 'test-removeDepot.R:31:3',
'test-removeDepot.R:38:3', 'test-searchReplace.R:2:3',
'test-updateOncologyXenograftSimeoni2004.R:2:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-addBaseline.R:15:3'): Test addBaselineConst function ───────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addDirectLin(readModelDb("PK_2cmt_no_depot")) at test-addBaseline.R:15:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addBaseline.R:34:3'): Test addBaselineExp function ─────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addDirectLin(readModelDb("PK_3cmt")) at test-addBaseline.R:34:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addBaseline.R:51:3'): Test addBaseline1exp function ────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addDirectLin(readModelDb("PK_2cmt")) at test-addBaseline.R:51:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addBaseline.R:68:3'): Test addBaselineLin function ─────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addDirectLin(readModelDb("PK_1cmt")) at test-addBaseline.R:68:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addDepot.R:2:3'): addDepot adds depot ──────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─base::suppressMessages(model <- removeDepot(readModelDb("PK_1cmt_des"))) at test-addDepot.R:2:3
2. │ └─base::withCallingHandlers(...)
3. └─nlmixr2lib::removeDepot(readModelDb("PK_1cmt_des"))
4. └─rxode2::assertRxUi(ui)
── Error ('test-addDepot.R:35:3'): addDepot adds other than default agruments ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─base::suppressMessages(model <- removeDepot(readModelDb("PK_1cmt_des"))) at test-addDepot.R:35:3
2. │ └─base::withCallingHandlers(...)
3. └─nlmixr2lib::removeDepot(readModelDb("PK_1cmt_des"))
4. └─rxode2::assertRxUi(ui)
── Error ('test-addDirectLin.R:14:3'): direct linear function creation ─────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addDirectLin(readModelDb("PK_3cmt_des")) at test-addDirectLin.R:14:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addEffectCmt.R:23:3'): Test addEffectCmtLin ────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addEffectCmtLin(readModelDb("PK_3cmt_des")) at test-addEffectCmt.R:23:3
2. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_1cmt_des; stim=in ───
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_1cmt_des; inhib=in ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_1cmt_des; stim=in ──────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_1cmt_des; inhib=in ─────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_1cmt_des; stim=in, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_1cmt_des; inhib=in, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_2cmt_des; stim=in ───
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_2cmt_des; inhib=in ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_2cmt_des; stim=in ──────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_2cmt_des; inhib=in ─────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_2cmt_des; stim=in, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_2cmt_des; inhib=in, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_3cmt_des; stim=in ───
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_3cmt_des; inhib=in ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_3cmt_des; stim=in ──────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_3cmt_des; inhib=in ─────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_3cmt_des; stim=in, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_3cmt_des; inhib=in, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_1cmt_des; stim=out ──
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_1cmt_des; inhib=out ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_1cmt_des; stim=out ─────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_1cmt_des; inhib=out ────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_1cmt_des; stim=out, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_1cmt_des; inhib=out, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_2cmt_des; stim=out ──
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_2cmt_des; inhib=out ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_2cmt_des; stim=out ─────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_2cmt_des; inhib=out ────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_2cmt_des; stim=out, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_2cmt_des; inhib=out, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:14:7'): addIndirectLin: PK_3cmt_des; stim=out ──
Expected `addIndirectLin(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:14:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), stim = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:17:7'): addIndirectLin: PK_3cmt_des; inhib=out ──
Expected `addIndirectLin(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:17:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirectLin(readModelDb(m), inhib = v)
8. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:20:7'): addIndirect: PK_3cmt_des; stim=out ─────
Expected `addIndirect(readModelDb(m), stim = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:20:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:23:7'): addIndirect: PK_3cmt_des; inhib=out ────
Expected `addIndirect(readModelDb(m), inhib = v)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:23:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:26:7'): addIndirect: PK_3cmt_des; stim=out, hill ──
Expected `addIndirect(readModelDb(m), stim = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:26:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), stim = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Failure ('test-addIndirect.R:29:7'): addIndirect: PK_3cmt_des; inhib=out, hill ──
Expected `addIndirect(readModelDb(m), inhib = v, hill = TRUE)` not to throw any errors.
Actually got a <simpleError> with message:
'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addIndirect.R:29:7
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addIndirect(readModelDb(m), inhib = v, hill = TRUE)
8. └─nlmixr2lib::addIndirectLin(...)
9. └─rxode2::assertRxUi(ui)
── Error ('test-addTransit.R:2:3'): addTransit adds transit compartment ────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 3) at test-addTransit.R:2:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addTransit.R:18:3'): addTransit throws an error with invalid 'central' ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-addTransit.R:18:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addTransit(...)
8. └─rxode2::assertRxUi(ui)
── Error ('test-addTransit.R:28:3'): addTransit adds transit compartments correctly with 'depot' ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 3) at test-addTransit.R:28:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-addTransit.R:40:3'): addTransit does not add transit compartments without 'depot' ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_warning(...) at test-addTransit.R:40:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::addTransit(readModelDb("PK_2cmt_no_depot"), 1)
8. └─rxode2::assertRxUi(ui)
── Error ('test-addWeibullAbs.R:46:3'): Test addWeibullAbs function removes transit ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─rxode2::rxode2(readModelDb("PK_1cmt_des")) %>% addTransit(3) at test-addWeibullAbs.R:46:3
2. └─nlmixr2lib::addTransit(., 3)
3. └─rxode2::assertRxUi(ui)
── Error ('test-convertLogLin.R:3:4'): convertLogLin ───────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::convertLogLin(addDirectLin(readModelDb("PK_2cmt_no_depot"))) at test-convertLogLin.R:3:4
2. └─rxode2::assertRxUi(ui)
── Error ('test-convertQuad.R:3:4'): convertQuad ───────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::convertQuad(...) at test-convertQuad.R:3:4
2. └─rxode2::assertRxUi(ui)
── Error ('test-removeDepot.R:7:3'): removeDepot throws error in model with invalid central compartment ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-removeDepot.R:7:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::removeDepot(readModelDb("PK_1cmt_des"), "cent", "depot")
8. └─rxode2::assertRxUi(ui)
── Error ('test-removeTransit.R:5:3'): removeTransit removes transit compartment ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 1) at test-removeTransit.R:5:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-removeTransit.R:13:3'): removeTransit removes ktr in model block ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 1) at test-removeTransit.R:13:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-removeTransit.R:21:3'): removeTransit modifies ODE for central compartment ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 1) at test-removeTransit.R:21:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-removeTransit.R:28:3'): removeTransit removes lktr in ini block ──
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::addTransit(readModelDb("PK_1cmt_des"), 1) at test-removeTransit.R:28:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-transPk.R:3:3'): transPk -- k ──────────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::pkTrans(readModelDb("PK_3cmt_des"), "k") at test-transPk.R:3:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-transPk.R:25:3'): transPk -- vss ───────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-transPk.R:25:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::pkTrans(readModelDb("PK_3cmt_des"), "vss")
8. └─rxode2::assertRxUi(ui)
── Error ('test-transPk.R:44:3'): transPk -- aob ───────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. ├─testthat::expect_error(...) at test-transPk.R:44:3
2. │ └─testthat:::expect_condition_matching_(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat (local) .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─nlmixr2lib::pkTrans(readModelDb("PK_3cmt_des"), "aob")
8. └─rxode2::assertRxUi(ui)
── Error ('test-transPk.R:60:3'): transPk --k21 ────────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::pkTrans(readModelDb("PK_3cmt_des"), "k21") at test-transPk.R:60:3
2. └─rxode2::assertRxUi(ui)
── Error ('test-transPk.R:81:3'): transPk -- alpha ─────────────────────────────
Error: 'ui' needs to be a rxUi model
Backtrace:
▆
1. └─nlmixr2lib::pkTrans(readModelDb("PK_3cmt_des"), "alpha") at test-transPk.R:81:3
2. └─rxode2::assertRxUi(ui)
[ FAIL 61 | WARN 0 | SKIP 22 | PASS 156 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc