R Under development (unstable) (2024-08-23 r87049 ucrt) -- "Unsuffered Consequences"
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> # R CMD BATCH --no-timing --no-restore --no-save solve_gas_test.R solve_gas_test.Rout
> 
> # Get rid of anything in the workspace:
> rm(list=ls()) 
> 
> library(httk)
> 
> # The following arguments were added: method = "lsode",mf = 10.
> # Rationale: Following is required for the same results on various OS's due to
> #   precision differences.
> head(solve_gas_pbtk(chem.name="pyrene",times=c(0,0.1,0.05),
+                     method = "lsode",mf = 10))
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 = 0.754.
The model outputs are provided in the following units:
	uM: Cgut, Cliver, Cven, Clung, Cart, Crest, Ckidney, Cplasma, Cmuc
	ppmv: Calvppmv, Cendexhppmv, Cmixexhppmv
	umol: Atubules, Ametabolized
	uM*days: AUC

     time   Cgut Cliver    Cven  Clung    Cart  Crest Ckidney Cplasma  Calvppmv
[1,] 0.00 0.0000 0.0000 0.00000 0.0000 0.00000 0.0000   0.000 0.00000 0.000e+00
[2,] 0.05 0.9644 0.8895 0.02384 0.4072 0.05132 0.1226   1.597 0.03164 1.298e-06
[3,] 0.10 1.5220 1.7390 0.04374 0.7268 0.07478 0.2932   2.376 0.05805 1.891e-06
     Cendexhppmv Cmixexhppmv Cmuc  Atubules Ametabolized       AUC
[1,]      0.0000      0.3000    0 0.0000000      0.00000 0.0000000
[2,]      0.0968      0.3678 1543 0.0007566      0.01178 0.0008709
[3,]      0.1612      0.4129 2584 0.0020170      0.05068 0.0031180
Warning messages:
1: 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.
2: In parameterize_gas_pbtk(chem.cas = "129-00-0", chem.name = "pyrene",  :
  Funbound.plasma adjusted for in vitro partitioning (Pearce, 2017). Set adjusted.Funbound.plasma to FALSE to use original value.
3: In parameterize_gas_pbtk(chem.cas = "129-00-0", chem.name = "pyrene",  :
  Cannot calculate saturable metabolism with Vmax = 0. Defaulting to first-order metabolic clearance.
4: In get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid,  :
  Default value of 1.6 used for Caco2 permeability.
> head(solve_gas_pbtk(chem.cas="129-00-0",times=c(0,0.1,0.05),
+                     method = "lsode",mf = 10))
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 = 0.754.
The model outputs are provided in the following units:
	uM: Cgut, Cliver, Cven, Clung, Cart, Crest, Ckidney, Cplasma, Cmuc
	ppmv: Calvppmv, Cendexhppmv, Cmixexhppmv
	umol: Atubules, Ametabolized
	uM*days: AUC

     time   Cgut Cliver    Cven  Clung    Cart  Crest Ckidney Cplasma  Calvppmv
[1,] 0.00 0.0000 0.0000 0.00000 0.0000 0.00000 0.0000   0.000 0.00000 0.000e+00
[2,] 0.05 0.9644 0.8895 0.02384 0.4072 0.05132 0.1226   1.597 0.03164 1.298e-06
[3,] 0.10 1.5220 1.7390 0.04374 0.7268 0.07478 0.2932   2.376 0.05805 1.891e-06
     Cendexhppmv Cmixexhppmv Cmuc  Atubules Ametabolized       AUC
[1,]      0.0000      0.3000    0 0.0000000      0.00000 0.0000000
[2,]      0.0968      0.3678 1543 0.0007566      0.01178 0.0008709
[3,]      0.1612      0.4129 2584 0.0020170      0.05068 0.0031180
Warning messages:
1: 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.
2: In parameterize_gas_pbtk(chem.cas = "129-00-0", chem.name = "Pyrene",  :
  Funbound.plasma adjusted for in vitro partitioning (Pearce, 2017). Set adjusted.Funbound.plasma to FALSE to use original value.
3: In parameterize_gas_pbtk(chem.cas = "129-00-0", chem.name = "Pyrene",  :
  Cannot calculate saturable metabolism with Vmax = 0. Defaulting to first-order metabolic clearance.
4: In get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid,  :
  Default value of 1.6 used for Caco2 permeability.
> head(solve_gas_pbtk(
+   parameters=parameterize_gas_pbtk(chem.cas="129-00-0"),
+   times=c(0,0.1,0.05),
+   method = "lsode",mf = 10))
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 = 0.754.
The model outputs are provided in the following units:
	uM: Cgut, Cliver, Cven, Clung, Cart, Crest, Ckidney, Cplasma, Cmuc
	ppmv: Calvppmv, Cendexhppmv, Cmixexhppmv
	umol: Atubules, Ametabolized
	uM*days: AUC

     time   Cgut Cliver    Cven  Clung    Cart  Crest Ckidney Cplasma  Calvppmv
[1,] 0.00 0.0000 0.0000 0.00000 0.0000 0.00000 0.0000   0.000 0.00000 0.000e+00
[2,] 0.05 0.9644 0.8895 0.02384 0.4072 0.05132 0.1226   1.597 0.03164 1.298e-06
[3,] 0.10 1.5220 1.7390 0.04374 0.7268 0.07478 0.2932   2.376 0.05805 1.891e-06
     Cendexhppmv Cmixexhppmv Cmuc  Atubules Ametabolized       AUC
[1,]      0.0000      0.3000    0 0.0000000      0.00000 0.0000000
[2,]      0.0968      0.3678 1543 0.0007566      0.01178 0.0008709
[3,]      0.1612      0.4129 2584 0.0020170      0.05068 0.0031180
Warning messages:
1: 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.
2: In parameterize_gas_pbtk(chem.cas = "129-00-0") :
  Funbound.plasma adjusted for in vitro partitioning (Pearce, 2017). Set adjusted.Funbound.plasma to FALSE to use original value.
3: In parameterize_gas_pbtk(chem.cas = "129-00-0") :
  Cannot calculate saturable metabolism with Vmax = 0. Defaulting to first-order metabolic clearance.
4: In get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid,  :
  Default value of 1.6 used for Caco2 permeability.
5: In solve_model(chem.name = chem.name, chem.cas = chem.cas, dtxsid = dtxsid,  :
  Rblood2plasma not recalculated. 
Set recalc.blood2plasma to TRUE if desired.
6: In solve_model(chem.name = chem.name, chem.cas = chem.cas, dtxsid = dtxsid,  :
  Clearance not recalculated. 
Set recalc.clearance to TRUE if desired.
> 
> p <- parameterize_gas_pbtk(chem.name="styrene")[sort(names(parameterize_gas_pbtk(chem.name="styrene")))]
Warning messages:
1: 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.
2: In parameterize_gas_pbtk(chem.name = "styrene") :
  Funbound.plasma adjusted for in vitro partitioning (Pearce, 2017). Set adjusted.Funbound.plasma to FALSE to use original value.
3: In parameterize_gas_pbtk(chem.name = "styrene") :
  Cannot calculate saturable metabolism with Vmax = 0. Defaulting to first-order metabolic clearance.
4: In get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid,  :
  Default value of 1.6 used for Caco2 permeability.
5: 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.
6: In parameterize_gas_pbtk(chem.name = "styrene") :
  Funbound.plasma adjusted for in vitro partitioning (Pearce, 2017). Set adjusted.Funbound.plasma to FALSE to use original value.
7: In parameterize_gas_pbtk(chem.name = "styrene") :
  Cannot calculate saturable metabolism with Vmax = 0. Defaulting to first-order metabolic clearance.
8: In get_caco2(chem.cas = chem.cas, chem.name = chem.name, dtxsid = dtxsid,  :
  Default value of 1.6 used for Caco2 permeability.
> for (this.param in sort(tolower(names(p)))) cat(paste(this.param,": ",p[[this.param]],"\n"))
bw :   
clint :   
clint.dist :   
clmetabolismc :   
fabsgut :   
fhep.assay.correction :   
funbound.plasma :   
funbound.plasma.adjustment :   
funbound.plasma.dist :   
hematocrit :  0.44 
kblood2air :   
kgut2pu :   
kgutabs :  0.3711 
kkidney2pu :   
kliver2pu :   
klung2pu :   
km :  1 
kmuc2air :   
krbc2pu :   
krest2pu :   
kurtc :   
liver.density :  1.05 
ma :   
million.cells.per.gliver :  110 
mw :   
pka_accept :   
pka_donor :   
pow :   
qalvc :   
qcardiacc :   
qgfrc :   
qgutf :   
qkidneyf :   
qliverf :   
qlungf :   
rblood2plasma :   
vartc :   
vgutc :   
vkidneyc :   
vliverc :   
vlungc :   
vmax :  0 
vmucc :   
vrestc :   
vvenc :   
> 
> quit("no")
> proc.time()
   user  system elapsed 
   7.87    0.29    8.17