Package: babelmixr2 Check: tests New result: ERROR Running ‘spelling.R’ [0s/0s] Running ‘testthat.R’ [170s/171s] 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-15 (Debian 15.2.0-4) 15.2.0’ 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-15 (Debian 15.2.0-4) 15.2.0’ 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-15 (Debian 15.2.0-4) 15.2.0’ v done > compiling events FD model... using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ v done [====|====|====|====|====|====|====|====|====|====] 0:00:08 > 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$volumeu`: "mL*mol/ng" [ FAIL 8 | WARN 6 | SKIP 9 | PASS 280 ] Error: Test failures Execution halted Package: epocakir Check: examples New result: ERROR Running examples in ‘epocakir-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: GFR_staging > ### Title: GFR Staging > ### Aliases: GFR_staging GFR_staging.data.frame GFR_staging.units > ### GFR_staging.numeric > > ### ** Examples > > df <- tibble::tibble( + eGFR = units::set_units(c(-1, NA, 100, 70, 50, 35, 20, 10), "mL/min/1.73m2") + ) > > GFR_staging(df, "eGFR") Error: cannot convert mL/(min*1.73m^2) into mL/min Execution halted Package: epocakir Check: tests New result: ERROR Running ‘testthat.R’ [16s/16s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(epocakir) > > test_check("epocakir") [ FAIL 1 | WARN 9 | SKIP 0 | PASS 598 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-ckd.R:378:3'): GFR_staging() ─────────────────────────────────── Error: cannot convert mL/(min*1.73m^2) into mL/min Backtrace: ▆ 1. ├─epocakir::GFR_staging(df, "eGFR") at test-ckd.R:378:3 2. └─epocakir:::GFR_staging.data.frame(df, "eGFR") 3. ├─epocakir::GFR_staging(.data[[rlang::as_name(rlang::enquo(GFR))]]) 4. └─epocakir:::GFR_staging.units(.data[[rlang::as_name(rlang::enquo(GFR))]]) 5. ├─epocakir::GFR_staging(as_metric(GFR = GFR, value_only = TRUE)) 6. └─epocakir::as_metric(GFR = GFR, value_only = TRUE) 7. ├─units::set_units(meas, conversion$metric_units, mode = "standard") 8. └─units:::set_units.units(meas, conversion$metric_units, mode = "standard") 9. ├─base::`units<-`(`*tmp*`, value = as_units(value, ...)) 10. └─units:::`units<-.units`(`*tmp*`, value = as_units(value, ...)) [ FAIL 1 | WARN 9 | SKIP 0 | PASS 598 ] Error: Test failures Execution halted Package: lwgeom Check: tests New result: NOTE Running ‘azimuth.R’ [1s/1s] Comparing ‘azimuth.Rout’ to ‘azimuth.Rout.save’ ...5,9d4 < Warning messages: < 1: In fun(libname, pkgname) : < GEOS versions differ: lwgeom has 3.14.0 sf has 3.13.1 < 2: In fun(libname, pkgname) : < PROJ versions differ: lwgeom has 9.7.0 sf has 9.6.2 Running ‘dist.R’ [1s/1s] Comparing ‘dist.Rout’ to ‘dist.Rout.save’ ... OK Running ‘geod.R’ [1s/1s] Comparing ‘geod.Rout’ to ‘geod.Rout.save’ ...12,16d11 < Warning messages: < 1: In fun(libname, pkgname) : < GEOS versions differ: lwgeom has 3.14.0 sf has 3.13.1 < 2: In fun(libname, pkgname) : < PROJ versions differ: lwgeom has 9.7.0 sf has 9.6.2 Running ‘perimeter.R’ [1s/1s] Comparing ‘perimeter.Rout’ to ‘perimeter.Rout.save’ ...4,8d3 < Warning messages: < 1: In fun(libname, pkgname) : < GEOS versions differ: lwgeom has 3.14.0 sf has 3.13.1 < 2: In fun(libname, pkgname) : < PROJ versions differ: lwgeom has 9.7.0 sf has 9.6.2 Running ‘testthat.R’ [2s/2s] Comparing ‘testthat.Rout’ to ‘testthat.Rout.save’ ...6,10d5 < Warning messages: < 1: In fun(libname, pkgname) : < GEOS versions differ: lwgeom has 3.14.0 sf has 3.13.1 < 2: In fun(libname, pkgname) : < PROJ versions differ: lwgeom has 9.7.0 sf has 9.6.2 Running ‘twkb.R’ [1s/1s] Comparing ‘twkb.Rout’ to ‘twkb.Rout.save’ ...6,10d5 < Warning messages: < 1: In fun(libname, pkgname) : < GEOS versions differ: lwgeom has 3.14.0 sf has 3.13.1 < 2: In fun(libname, pkgname) : < PROJ versions differ: lwgeom has 9.7.0 sf has 9.6.2