CRAN Package Check Results for Maintainer ‘Matthew Fidler <matthew.fidler at gmail.com>’

Last updated on 2025-10-10 11:51:44 CEST.

Package	ERROR	NOTE	OK
babelmixr2	2	3	8
dparser			13
lbfgsb3c			13
lotri			13
monolix2rx		2	11
n1qn1			13
nlmixr2			13
nlmixr2data			13
nlmixr2est		2	11
nlmixr2extra			13
nlmixr2plot			13
nonmem2rx		3	10
PreciseSums			13
rxode2		3	10
rxode2ll		2	11

Package babelmixr2

Current CRAN status: ERROR: 2, NOTE: 3, OK: 8

Version: 0.1.9
Check: tests
Result: ERROR Running ‘spelling.R’ Running ‘testthat.R’ [8m/16m] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(babelmixr2) > > test_check("babelmixr2") i parameter labels from comments will be replaced by 'label()' i mu2 item: Rx_pow_di(WT, 2) i writing monolix files i done i run Monolix manually and rerun nlmixr() i mu2 item: Rx_pow_di(WT, 2) i leaving alone monolix files because 'monolixTest-monolix.txt' is present > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done > finding duplicate expressions in EBE model... [====|====|====|====|====|====|====|====|====|====] 0:00:00 > optimizing duplicate expressions in EBE model... [====|====|====|====|====|====|====|====|====|====] 0:00:00 > compiling EBE model... using C compiler: ‘clang version 21.1.3’ v done > Calculating residuals/tables v done > compress origData in nlmixr2 object, save 1336 > compress parHistData in nlmixr2 object, save 1624 Error : nonmem minimization not successful > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done > calculate jacobian > calculate sensitivities > calculate d(f)/d(eta) > finding duplicate expressions in inner model... > optimizing duplicate expressions in inner model... > finding duplicate expressions in EBE model... > optimizing duplicate expressions in EBE model... > compiling inner model... using C compiler: ‘clang version 21.1.3’ v done > finding duplicate expressions in FD model... [====|====|====|====|====|====|====|====|====|====] 0:00:00 > optimizing duplicate expressions in FD model... [====|====|====|====|====|====|====|====|====|====] 0:00:00 > compiling EBE model... using C compiler: ‘clang version 21.1.3’ v done > compiling events FD model... using C compiler: ‘clang version 21.1.3’ v done [====|====|====|====|====|====|====|====|====|====] 0:00:20 > compress origData in nlmixr2 object, save 27560 Updated original fit object f warning: eig_sym(): given matrix is not symmetric > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done i writing nonmem files i done i only exported NONMEM control stream/data > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done i writing nonmem files i done > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done i mu2 item: Rx_pow_di(WT, 2) > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done i writing nonmem files i done i only exported NONMEM control stream/data i mu2 item: Rx_pow_di(WT, 2) > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done i only exported NONMEM control stream/data Error in bblDatToPknca(model = env$ui, data = rawData, rxControl = rxControl) : no dosing rows (EVID = 1 or 4) detected Error : no rows in event table or input data Error in nlmixr2Est(env, ...) : Could not detect DV assignment for unit conversion i volumeu detected from amtu and dvu as: mol*mL/ng [ FAIL 8 | WARN 6 | SKIP 9 | PASS 280 ] ══ Skipped tests (9) ═══════════════════════════════════════════════════════════ • On CRAN (9): 'test-as-nlmixr2.R:8:3', 'test-as-nlmixr2.R:66:3', 'test-bioavil-works.R:2:3', 'test-convert.R:2:3', 'test-convert.R:35:3', 'test-convert.R:215:3', 'test-convert.R:229:3', 'test-fmeMcmc.R:4:3', 'test-psuedoOptim.R:3:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-units.R:5:3'): simplifyUnit ────────────────────────────────── simplifyUnit("", "kg") (`actual`) not equal to "1/kg" (`expected`). `actual`: "fraction/kg" `expected`: "1/kg" ── Failure ('test-units.R:7:3'): simplifyUnit ────────────────────────────────── simplifyUnit(NA, "kg") (`actual`) not equal to "1/kg" (`expected`). `actual`: "fraction/kg" `expected`: "1/kg" ── Failure ('test-units.R:9:3'): simplifyUnit ────────────────────────────────── simplifyUnit("", "kg^2") (`actual`) not equal to "1/(kg*kg)" (`expected`). `actual`: "fraction/(kg*kg)" `expected`: "1/(kg*kg)" ── Failure ('test-units.R:15:3'): simplifyUnit ───────────────────────────────── simplifyUnit(denominator = "mg") (`actual`) not equal to "1/mg" (`expected`). `actual`: "fraction/mg" `expected`: "1/mg" ── Failure ('test-units.R:74:3'): modelUnitConversion ────────────────────────── `conversion` (`actual`) not equal to list(...) (`expected`). `actual$clearanceu`: "mL/(kg*h)" `expected$clearanceu`: "mL/(h*kg)" ── Failure ('test-units.R:91:3'): modelUnitConversion ────────────────────────── `conversion` (`actual`) not equal to list(...) (`expected`). `actual$clearanceu`: "mL/(kg*h)" `expected$clearanceu`: "mL/(h*kg)" `actual$cmtu`: "mg*kg/(g*mL)" `expected$cmtu`: "kg*mg/(g*mL)" ── Failure ('test-units.R:104:3'): modelUnitConversion ───────────────────────── `... <- NULL` did not throw the expected message. ── Failure ('test-units.R:109:3'): modelUnitConversion ───────────────────────── `conversion` (`actual`) not equal to list(...) (`expected`). `actual$clearanceu`: "mol*mL/(ng*h)" `expected$clearanceu`: "mL*mol/(h*ng)" `actual$volumeu`: "mol*mL/ng" `expected$volumeu`: "mL*mol/ng" [ FAIL 8 | WARN 6 | SKIP 9 | PASS 280 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.1.9
Check: tests
Result: ERROR Running ‘spelling.R’ Running ‘testthat.R’ [9m/21m] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(babelmixr2) > > test_check("babelmixr2") i parameter labels from comments will be replaced by 'label()' i mu2 item: Rx_pow_di(WT, 2) i writing monolix files i done i run Monolix manually and rerun nlmixr() i mu2 item: Rx_pow_di(WT, 2) i leaving alone monolix files because 'monolixTest-monolix.txt' is present > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done > finding duplicate expressions in EBE model... [====|====|====|====|====|====|====|====|====|====] 0:00:00 > optimizing duplicate expressions in EBE model... [====|====|====|====|====|====|====|====|====|====] 0:00:00 > compiling EBE model... using C compiler: ‘gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’ v done > Calculating residuals/tables v done > compress origData in nlmixr2 object, save 1336 > compress parHistData in nlmixr2 object, save 1624 Error : nonmem minimization not successful > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done > calculate jacobian > calculate sensitivities > calculate d(f)/d(eta) > finding duplicate expressions in inner model... > optimizing duplicate expressions in inner model... > finding duplicate expressions in EBE model... > optimizing duplicate expressions in EBE model... > compiling inner model... using C compiler: ‘gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’ v done > finding duplicate expressions in FD model... [====|====|====|====|====|====|====|====|====|====] 0:00:00 > optimizing duplicate expressions in FD model... [====|====|====|====|====|====|====|====|====|====] 0:00:00 > compiling EBE model... using C compiler: ‘gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’ v done > compiling events FD model... using C compiler: ‘gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’ v done [====|====|====|====|====|====|====|====|====|====] 0:00:21 > compress origData in nlmixr2 object, save 27560 Updated original fit object f warning: eig_sym(): given matrix is not symmetric > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done i writing nonmem files i done i only exported NONMEM control stream/data > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done i writing nonmem files i done > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done i mu2 item: Rx_pow_di(WT, 2) > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done i writing nonmem files i done i only exported NONMEM control stream/data i mu2 item: Rx_pow_di(WT, 2) > loading into symengine environment... > pruning branches (`if`/`else`) of full model... v done i only exported NONMEM control stream/data Error in bblDatToPknca(model = env$ui, data = rawData, rxControl = rxControl) : no dosing rows (EVID = 1 or 4) detected Error : no rows in event table or input data Error in nlmixr2Est(env, ...) : Could not detect DV assignment for unit conversion i volumeu detected from amtu and dvu as: mol*mL/ng [ FAIL 8 | WARN 6 | SKIP 9 | PASS 280 ] ══ Skipped tests (9) ═══════════════════════════════════════════════════════════ • On CRAN (9): 'test-as-nlmixr2.R:8:3', 'test-as-nlmixr2.R:66:3', 'test-bioavil-works.R:2:3', 'test-convert.R:2:3', 'test-convert.R:35:3', 'test-convert.R:215:3', 'test-convert.R:229:3', 'test-fmeMcmc.R:4:3', 'test-psuedoOptim.R:3:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-units.R:5:3'): simplifyUnit ────────────────────────────────── simplifyUnit("", "kg") (`actual`) not equal to "1/kg" (`expected`). `actual`: "fraction/kg" `expected`: "1/kg" ── Failure ('test-units.R:7:3'): simplifyUnit ────────────────────────────────── simplifyUnit(NA, "kg") (`actual`) not equal to "1/kg" (`expected`). `actual`: "fraction/kg" `expected`: "1/kg" ── Failure ('test-units.R:9:3'): simplifyUnit ────────────────────────────────── simplifyUnit("", "kg^2") (`actual`) not equal to "1/(kg*kg)" (`expected`). `actual`: "fraction/(kg*kg)" `expected`: "1/(kg*kg)" ── Failure ('test-units.R:15:3'): simplifyUnit ───────────────────────────────── simplifyUnit(denominator = "mg") (`actual`) not equal to "1/mg" (`expected`). `actual`: "fraction/mg" `expected`: "1/mg" ── Failure ('test-units.R:74:3'): modelUnitConversion ────────────────────────── `conversion` (`actual`) not equal to list(...) (`expected`). `actual$clearanceu`: "mL/(kg*h)" `expected$clearanceu`: "mL/(h*kg)" ── Failure ('test-units.R:91:3'): modelUnitConversion ────────────────────────── `conversion` (`actual`) not equal to list(...) (`expected`). `actual$clearanceu`: "mL/(kg*h)" `expected$clearanceu`: "mL/(h*kg)" `actual$cmtu`: "mg*kg/(g*mL)" `expected$cmtu`: "kg*mg/(g*mL)" ── Failure ('test-units.R:104:3'): modelUnitConversion ───────────────────────── `... <- NULL` did not throw the expected message. ── Failure ('test-units.R:109:3'): modelUnitConversion ───────────────────────── `conversion` (`actual`) not equal to list(...) (`expected`). `actual$clearanceu`: "mol*mL/(ng*h)" `expected$clearanceu`: "mL*mol/(h*ng)" `actual$volumeu`: "mol*mL/ng" `expected$volumeu`: "mL*mol/ng" [ FAIL 8 | WARN 6 | SKIP 9 | PASS 280 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 0.1.9
Check: package dependencies
Result: NOTE Package suggested but not available for checking: ‘lixoftConnectors’ Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package dparser

Current CRAN status: OK: 13

Package lbfgsb3c

Current CRAN status: OK: 13

Package lotri

Current CRAN status: OK: 13

Package monolix2rx

Current CRAN status: NOTE: 2, OK: 11

Version: 0.0.6
Check: installed package size
Result: NOTE installed size is 6.0Mb sub-directories of 1Mb or more: libs 3.7Mb theo 1.1Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Package n1qn1

Current CRAN status: OK: 13

Package nlmixr2

Current CRAN status: OK: 13

Package nlmixr2data

Current CRAN status: OK: 13

Package nlmixr2est

Current CRAN status: NOTE: 2, OK: 11

Version: 4.1.1
Check: installed package size
Result: NOTE installed size is 22.8Mb sub-directories of 1Mb or more: R 2.1Mb libs 19.6Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Package nlmixr2extra

Current CRAN status: OK: 13

Package nlmixr2plot

Current CRAN status: OK: 13

Package nonmem2rx

Current CRAN status: NOTE: 3, OK: 10

Version: 0.1.8
Check: installed package size
Result: NOTE installed size is 9.3Mb sub-directories of 1Mb or more: libs 5.3Mb mods 3.3Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package PreciseSums

Current CRAN status: OK: 13

Package rxode2

Current CRAN status: NOTE: 3, OK: 10

Version: 4.1.1
Check: installed package size
Result: NOTE installed size is 11.3Mb sub-directories of 1Mb or more: R 2.1Mb include 1.3Mb libs 6.0Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package rxode2ll

Current CRAN status: NOTE: 2, OK: 11

Version: 2.0.13
Check: installed package size
Result: NOTE installed size is 13.9Mb sub-directories of 1Mb or more: libs 13.8Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64