CRAN Package Check Results for Package httk

Last updated on 2025-07-26 19:49:55 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 2.7.0 44.21 762.69 806.90 OK
r-devel-linux-x86_64-debian-gcc 2.7.0 29.52 480.76 510.28 ERROR
r-devel-linux-x86_64-fedora-clang 2.7.0 1261.32 OK
r-devel-linux-x86_64-fedora-gcc 2.7.0 1239.17 OK
r-devel-windows-x86_64 2.7.0 55.00 657.00 712.00 OK
r-patched-linux-x86_64 2.6.1 42.48 627.56 670.04 OK
r-release-linux-x86_64 2.6.1 33.15 624.12 657.27 OK
r-release-macos-arm64 2.6.1 229.00 OK
r-release-macos-x86_64 2.7.0 556.00 OK
r-release-windows-x86_64 2.7.0 57.00 679.00 736.00 OK
r-oldrel-macos-arm64 2.6.1 296.00 NOTE
r-oldrel-macos-x86_64 2.7.0 566.00 NOTE
r-oldrel-windows-x86_64 2.7.0 71.00 771.00 842.00 NOTE

Additional issues

valgrind

Check Details

Version: 2.7.0
Check: examples
Result: ERROR Running examples in ‘httk-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: solve_dermal_pbtk > ### Title: Solve_dermal_PBTK > ### Aliases: solve_dermal_pbtk > ### Keywords: Solve > > ### ** Examples > > > # Dermal exposure to default dose > out <- solve_dermal_pbtk(chem.name="bisphenola") Warning in solve_dermal_pbtk(chem.name = "bisphenola") : If route is not chosen, it is set to dermal by default. Warning in solve_dermal_pbtk(chem.name = "bisphenola") : Vvehicle not specified, so set to 0.1 L. Warning in solve_dermal_pbtk(chem.name = "bisphenola") : The initial.dose is automatically set to 1mg/kg. Warning in get_clint(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Clint is provided as a distribution. Warning in apply_clint_adjustment(Clint.point, Fu_hep = Fu_hep, suppress.messages = suppress.messages) : Clint adjusted for in vitro partitioning (Kilford, 2008), see calc_hep_fu. Warning in get_fup(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Fraction unbound is provided as a distribution. Warning in apply_fup_adjustment(fup.point, fup.correction = fup.adjustment, : Fup adjusted for in vivo lipid partitioning (Pearce, 2017), see calc_fup_correction. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Funbound.plasma recalculated with adjustment. Set adjusted.Funbound.plasma to FALSE to use original value. Warning in available_rblood2plasma(chem.cas = chem.cas, species = species, : Human in vivo measured Rblood2plasma used. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Since parameter Kvehicle2water is null, vehicle containing chemical is assumed to be water. Warning in get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid, : Default value of 1.6 used for Caco2 permeability. None of the monitored components undergo unit conversions (i.e. conversion factor of 1). AUC is area under the plasma concentration curve in uM*days units with Rblood2plasma = 0.77. The model outputs are provided in the following units: umol: Avehicle, Aplasma, Ain, Aexhaled, Atubules, Ametabolized uM: Cgut, Cliver, Cven, Clung, Cart, Crest, Ckidney, Cplasma, Cskin_exposed, Cskin_unexposed, Cvehicle uM*days: AUC > # Dermal exposure to 20 mg/L in 0.01 L of octanol with wash-off after 8 hours > # Since skin permeability happens quickly for bisphenol A, let's only look at 3 days. > dose.conc <- 2 #mg/L > Vvehicle <- 0.01 #L > initial.dose <- dose.conc*Vvehicle > out <- solve_dermal_pbtk(chem.name="bisphenola", initial.dose=initial.dose, + input.units="mg", Vvehicle=0.01, + Kskin2vehicle="octanol", dose.duration=8, + dose.duration.units="hr", days=3) Warning in solve_dermal_pbtk(chem.name = "bisphenola", initial.dose = initial.dose, : If route is not chosen, it is set to dermal by default. Warning in solve_dermal_pbtk(chem.name = "bisphenola", initial.dose = initial.dose, : Washoff occurs automatically if dose.duration is used. Warning in get_clint(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Clint is provided as a distribution. Warning in apply_clint_adjustment(Clint.point, Fu_hep = Fu_hep, suppress.messages = suppress.messages) : Clint adjusted for in vitro partitioning (Kilford, 2008), see calc_hep_fu. Warning in get_fup(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Fraction unbound is provided as a distribution. Warning in apply_fup_adjustment(fup.point, fup.correction = fup.adjustment, : Fup adjusted for in vivo lipid partitioning (Pearce, 2017), see calc_fup_correction. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Funbound.plasma recalculated with adjustment. Set adjusted.Funbound.plasma to FALSE to use original value. Warning in available_rblood2plasma(chem.cas = chem.cas, species = species, : Human in vivo measured Rblood2plasma used. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Since parameter Kvehicle2water is null, vehicle containing chemical is assumed to be water. Warning in get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid, : Default value of 1.6 used for Caco2 permeability. None of the monitored components undergo unit conversions (i.e. conversion factor of 1). AUC is area under the plasma concentration curve in uM*days units with Rblood2plasma = 0.77. The model outputs are provided in the following units: umol: Avehicle, Aplasma, Ain, Aexhaled, Atubules, Ametabolized uM: Cgut, Cliver, Cven, Clung, Cart, Crest, Ckidney, Cplasma, Cskin_exposed, Cskin_unexposed, Cvehicle uM*days: AUC > > # Now, try this again with an infinite dose. > out <- solve_dermal_pbtk(chem.name="bisphenola", initial.dose=dose.conc, + input.units="mg/L", Vvehicle=0.01, + Kskin2vehicle="octanol", dose.duration=8, + dose.duration.units="hr", days=3, + InfiniteDose=TRUE) Warning in solve_dermal_pbtk(chem.name = "bisphenola", initial.dose = dose.conc, : If route is not chosen, it is set to dermal by default. Warning in solve_dermal_pbtk(chem.name = "bisphenola", initial.dose = dose.conc, : When InfiniteDose = TRUE, washoff is ignored, and Vvehicle is set to 0 L and ignored. Warning in solve_dermal_pbtk(chem.name = "bisphenola", initial.dose = dose.conc, : Washoff occurs automatically if dose.duration is used. Warning in get_clint(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Clint is provided as a distribution. Warning in apply_clint_adjustment(Clint.point, Fu_hep = Fu_hep, suppress.messages = suppress.messages) : Clint adjusted for in vitro partitioning (Kilford, 2008), see calc_hep_fu. Warning in get_fup(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Fraction unbound is provided as a distribution. Warning in apply_fup_adjustment(fup.point, fup.correction = fup.adjustment, : Fup adjusted for in vivo lipid partitioning (Pearce, 2017), see calc_fup_correction. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Funbound.plasma recalculated with adjustment. Set adjusted.Funbound.plasma to FALSE to use original value. Warning in available_rblood2plasma(chem.cas = chem.cas, species = species, : Human in vivo measured Rblood2plasma used. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Since parameter Kvehicle2water is null, vehicle containing chemical is assumed to be water. Warning in get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid, : Default value of 1.6 used for Caco2 permeability. None of the monitored components undergo unit conversions (i.e. conversion factor of 1). AUC is area under the plasma concentration curve in uM*days units with Rblood2plasma = 0.77. The model outputs are provided in the following units: uM: Cvehicle_infinite, Cgut, Cliver, Cven, Clung, Cart, Crest, Ckidney, Cplasma, Cskin_exposed, Cskin_unexposed, Cvehicle umol: Aplasma, Ain, Aexhaled, Atubules, Ametabolized uM*days: AUC > > # Now, try a scenario where 2 mg of chemical in 1 mL of water is applied > # and washed off 8 hours later every day for 5 days > num.days <- 5; > time <- c(0:(num.days-1),(0:(num.days-1)) + 8/24); time <- sort(time) #in days > Vvehicle <- rep(1e-3,length(time)) #convert mL to L > Cvehicle <- rep(c(2,0),num.days)/Vvehicle # convert 2 mg to mg/L > dosing.dermal <- cbind(time,Cvehicle,Vvehicle) > out <- solve_dermal_pbtk(chem.name='bisphenola', + dosing.dermal=dosing.dermal) Warning in solve_dermal_pbtk(chem.name = "bisphenola", dosing.dermal = dosing.dermal) : If route is not chosen, it is set to dermal by default. Warning in get_clint(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Clint is provided as a distribution. Warning in apply_clint_adjustment(Clint.point, Fu_hep = Fu_hep, suppress.messages = suppress.messages) : Clint adjusted for in vitro partitioning (Kilford, 2008), see calc_hep_fu. Warning in get_fup(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Fraction unbound is provided as a distribution. Warning in apply_fup_adjustment(fup.point, fup.correction = fup.adjustment, : Fup adjusted for in vivo lipid partitioning (Pearce, 2017), see calc_fup_correction. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Funbound.plasma recalculated with adjustment. Set adjusted.Funbound.plasma to FALSE to use original value. Warning in available_rblood2plasma(chem.cas = chem.cas, species = species, : Human in vivo measured Rblood2plasma used. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Since parameter Kvehicle2water is null, vehicle containing chemical is assumed to be water. Warning in get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid, : Default value of 1.6 used for Caco2 permeability. None of the monitored components undergo unit conversions (i.e. conversion factor of 1). AUC is area under the plasma concentration curve in uM*days units with Rblood2plasma = 0.77. The model outputs are provided in the following units: umol: Avehicle, Aplasma, Ain, Aexhaled, Atubules, Ametabolized uM: Cgut, Cliver, Cven, Clung, Cart, Crest, Ckidney, Cplasma, Cskin_exposed, Cskin_unexposed, Cvehicle uM*days: AUC > > parameters <- parameterize_dermal_pbtk(chem.name='bisphenola',skin_depth=1) Warning in get_clint(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Clint is provided as a distribution. Warning in apply_clint_adjustment(Clint.point, Fu_hep = Fu_hep, suppress.messages = suppress.messages) : Clint adjusted for in vitro partitioning (Kilford, 2008), see calc_hep_fu. Warning in get_fup(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Fraction unbound is provided as a distribution. Warning in apply_fup_adjustment(fup.point, fup.correction = fup.adjustment, : Fup adjusted for in vivo lipid partitioning (Pearce, 2017), see calc_fup_correction. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", skin_depth = 1) : Funbound.plasma recalculated with adjustment. Set adjusted.Funbound.plasma to FALSE to use original value. Warning in available_rblood2plasma(chem.cas = chem.cas, species = species, : Human in vivo measured Rblood2plasma used. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", skin_depth = 1) : Since parameter Kvehicle2water is null, vehicle containing chemical is assumed to be water. Warning in get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid, : Default value of 1.6 used for Caco2 permeability. > parameters$Fskin_exposed <- 0.25 > parameters$Vvehicle <- 1 > out <- solve_dermal_pbtk(parameters=parameters) Warning in solve_dermal_pbtk(parameters = parameters) : If route is not chosen, it is set to dermal by default. Warning in solve_dermal_pbtk(parameters = parameters) : Vvehicle not specified, so set to 0.1 L. Warning in solve_dermal_pbtk(parameters = parameters) : The initial.dose is automatically set to 1mg/kg. None of the monitored components undergo unit conversions (i.e. conversion factor of 1). Warning in (function (chem.name = NULL, chem.cas = NULL, dtxsid = NULL, : Rblood2plasma not recalculated. Set recalc.blood2plasma to TRUE if desired. Warning in (function (chem.name = NULL, chem.cas = NULL, dtxsid = NULL, : Clearance not recalculated. Set recalc.clearance to TRUE if desired. AUC is area under the plasma concentration curve in uM*days units with Rblood2plasma = 0.77. The model outputs are provided in the following units: umol: Avehicle, Aplasma, Ain, Aexhaled, Atubules, Ametabolized uM: Cgut, Cliver, Cven, Clung, Cart, Crest, Ckidney, Cplasma, Cskin_exposed, Cskin_unexposed, Cvehicle uM*days: AUC > > # Dermal is the default route: > head(solve_dermal_pbtk(chem.name="bisphenola")) Warning in solve_dermal_pbtk(chem.name = "bisphenola") : If route is not chosen, it is set to dermal by default. Warning in solve_dermal_pbtk(chem.name = "bisphenola") : Vvehicle not specified, so set to 0.1 L. Warning in solve_dermal_pbtk(chem.name = "bisphenola") : The initial.dose is automatically set to 1mg/kg. Warning in get_clint(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Clint is provided as a distribution. Warning in apply_clint_adjustment(Clint.point, Fu_hep = Fu_hep, suppress.messages = suppress.messages) : Clint adjusted for in vitro partitioning (Kilford, 2008), see calc_hep_fu. Warning in get_fup(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Fraction unbound is provided as a distribution. Warning in apply_fup_adjustment(fup.point, fup.correction = fup.adjustment, : Fup adjusted for in vivo lipid partitioning (Pearce, 2017), see calc_fup_correction. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Funbound.plasma recalculated with adjustment. Set adjusted.Funbound.plasma to FALSE to use original value. Warning in available_rblood2plasma(chem.cas = chem.cas, species = species, : Human in vivo measured Rblood2plasma used. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Since parameter Kvehicle2water is null, vehicle containing chemical is assumed to be water. Warning in get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid, : Default value of 1.6 used for Caco2 permeability. None of the monitored components undergo unit conversions (i.e. conversion factor of 1). AUC is area under the plasma concentration curve in uM*days units with Rblood2plasma = 0.77. The model outputs are provided in the following units: umol: Avehicle, Aplasma, Ain, Aexhaled, Atubules, Ametabolized uM: Cgut, Cliver, Cven, Clung, Cart, Crest, Ckidney, Cplasma, Cskin_exposed, Cskin_unexposed, Cvehicle uM*days: AUC time Avehicle Cgut Cliver Cven Clung Cart Crest [1,] 0.00 306.6 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 [2,] 0.01 306.5 0.000901 0.000314 0.000199 0.001722 0.000179 0.000054 [3,] 0.02 306.4 0.003364 0.001763 0.000419 0.003757 0.000399 0.000251 [4,] 0.03 306.3 0.006527 0.004393 0.000640 0.005795 0.000620 0.000586 [5,] 0.04 306.3 0.009953 0.007928 0.000857 0.007806 0.000837 0.001046 [6,] 0.05 306.2 0.013450 0.012060 0.001070 0.009778 0.001051 0.001618 Ckidney Cplasma Aplasma Cskin_exposed Cskin_unexposed Cvehicle Ain [1,] 0.000000 0.000000 0.000000 0.0000 0.000000 10.000 0.00000 [2,] 0.002595 0.000258 0.000388 0.3574 0.000136 9.997 0.08512 [3,] 0.007784 0.000544 0.000817 0.6543 0.000610 9.994 0.16990 [4,] 0.013320 0.000830 0.001246 0.9008 0.001379 9.992 0.25450 [5,] 0.018830 0.001113 0.001669 1.1060 0.002393 9.989 0.33890 [6,] 0.024250 0.001389 0.002084 1.2760 0.003603 9.986 0.42310 Aexhaled Atubules Ametabolized AUC [1,] 0 0.000000 0.0e+00 0.0e+00 [2,] 0 0.000004 0.0e+00 1.0e-06 [3,] 0 0.000021 3.0e-06 5.0e-06 [4,] 0 0.000050 1.1e-05 1.2e-05 [5,] 0 0.000091 2.7e-05 2.2e-05 [6,] 0 0.000145 5.4e-05 3.4e-05 > head(solve_dermal_pbtk(chem.name="bisphenola", route="dermal")) Warning in solve_dermal_pbtk(chem.name = "bisphenola", route = "dermal") : Vvehicle not specified, so set to 0.1 L. Warning in solve_dermal_pbtk(chem.name = "bisphenola", route = "dermal") : The initial.dose is automatically set to 1mg/kg. Warning in get_clint(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Clint is provided as a distribution. Warning in apply_clint_adjustment(Clint.point, Fu_hep = Fu_hep, suppress.messages = suppress.messages) : Clint adjusted for in vitro partitioning (Kilford, 2008), see calc_hep_fu. Warning in get_fup(dtxsid = dtxsid, chem.name = chem.name, chem.cas = chem.cas, : Fraction unbound is provided as a distribution. Warning in apply_fup_adjustment(fup.point, fup.correction = fup.adjustment, : Fup adjusted for in vivo lipid partitioning (Pearce, 2017), see calc_fup_correction. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Funbound.plasma recalculated with adjustment. Set adjusted.Funbound.plasma to FALSE to use original value. Warning in available_rblood2plasma(chem.cas = chem.cas, species = species, : Human in vivo measured Rblood2plasma used. Warning in parameterize_dermal_pbtk(chem.name = "bisphenola", species = "Human", : Since parameter Kvehicle2water is null, vehicle containing chemical is assumed to be water. Warning in get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid, : Default value of 1.6 used for Caco2 permeability. DLSODA- At T (=R1), too much accuracy requested for precision of machine.. See TOLSF (=R2) In above message, R1 = 9.96383e-06, R2 = nan Warning in lsoda(y, times, func, parms, ...) : Excessive precision requested. scale up `rtol' and `atol' e.g by the factor 10 Warning in lsoda(y, times, func, parms, ...) : Returning early. Results are accurate, as far as they go Error in (function (chem.name = NULL, chem.cas = NULL, dtxsid = NULL, : Some of the requested variables to monitor (monitor.vars) are not in the columns of the deSolve output object. These variables should belong to either the states or outputs of the model. Calls: head -> solve_dermal_pbtk -> do.call -> <Anonymous> Execution halted Examples with CPU (user + system) or elapsed time > 5s user system elapsed parameterize_steadystate 3.985 0 5.065 Flavor: r-devel-linux-x86_64-debian-gcc

Version: 2.6.1
Check: installed package size
Result: NOTE installed size is 6.5Mb sub-directories of 1Mb or more: data 2.2Mb doc 1.7Mb help 1.3Mb Flavor: r-oldrel-macos-arm64

Version: 2.7.0
Check: installed package size
Result: NOTE installed size is 7.9Mb sub-directories of 1Mb or more: data 3.1Mb doc 2.0Mb help 1.4Mb Flavors: r-oldrel-macos-x86_64, r-oldrel-windows-x86_64