extload.RdLoad parameter values from a nonmem .ext output file. For output files from FO, FOCE and IMP only the final parameter values are loaded. For output tables of MCMC and SAEM all parameter values from ITERATIONS>0 will be loaded unless positive.iterations=FALSE in case all the output from all iterations are loaded.
For ext-files with multiple table results either only the last table result is loaded (last.table.only=TRUE, default) or all table result are loaded (last.table.only=FALSE). All but the last table results are then returned as sub-lists to the last table result.
extload(
model,
use.model.path = TRUE,
positive.iterations.only = TRUE,
last.table.only = TRUE
)name of the ext file with or without the .ext extension. model may include full or relative path to the ext file. See examples.
Load file from a global defined model library (TRUE=default).
If so will look for a global character vector named model.path
Include only rows with ITERATIONS>0 from MCMC and SEAM table results (default=TRUE)
Include only the last table result for ext files with multiple table results
Named list including theta, theta.sd, omega, omega.sd, sigma, sigma.sd, and ofv. Here .sd is the vector(matrix) with standard errors estimated parameter values in theta(omega & sigma).
For MCMC output files each object are matrixes.
##### Load the .ext file "run001.ext"
# 1) Get path to the example file included in nonmem2R package
file1 <- system.file("extdata", "run001.ext", package = "nonmem2R")
# 2) Load the file using the extload function
extload(file1)
#> $theta
#> THETA1 THETA2 THETA3 THETA4 THETA5 THETA6 THETA7
#> 27.732200 112.773000 98.247800 20.808500 0.168248 0.938162 1.000000
#> THETA8 THETA9 THETA10 THETA11 THETA12 THETA13 THETA14
#> 15.604500 9.696140 44.518300 5.559610 0.145536 1.656860 1.077060
#> THETA15
#> 1.958350
#>
#> $theta.sd
#> THETA1 THETA2 THETA3 THETA4 THETA5 THETA6
#> 1.80881e+00 1.06615e+01 6.39463e+00 2.39101e+00 8.68468e-03 7.13432e-02
#> THETA7 THETA8 THETA9 THETA10 THETA11 THETA12
#> 1.00000e+10 5.80057e-01 4.09002e-01 2.24989e+00 3.89094e-01 7.43010e-03
#> THETA13 THETA14 THETA15
#> 1.64017e-01 1.60450e-01 1.88874e-01
#>
#> $omega
#> OMEGA1 OMEGA2 OMEGA3 OMEGA4 OMEGA5 OMEGA6 OMEGA7
#> OMEGA1 0.0704585 0.0000000 0.0000000 0 0.000000 0 0.0000000
#> OMEGA2 0.0000000 0.0386847 0.0000000 0 0.000000 0 0.0000000
#> OMEGA3 0.0000000 0.0000000 0.0430261 0 0.000000 0 0.0000000
#> OMEGA4 0.0000000 0.0000000 0.0000000 0 0.000000 0 0.0000000
#> OMEGA5 0.0000000 0.0000000 0.0000000 0 0.146879 0 0.0000000
#> OMEGA6 0.0000000 0.0000000 0.0000000 0 0.000000 0 0.0000000
#> OMEGA7 0.0000000 0.0000000 0.0000000 0 0.000000 0 0.0506769
#>
#> $omega.sd
#> OMEGA1 OMEGA2 OMEGA3 OMEGA4 OMEGA5 OMEGA6
#> OMEGA1 3.09649e-02 1.00000e+10 1.00000e+10 1e+10 1.00000e+10 1e+10
#> OMEGA2 1.00000e+10 1.38764e-02 1.00000e+10 1e+10 1.00000e+10 1e+10
#> OMEGA3 1.00000e+10 1.00000e+10 1.16588e-02 1e+10 1.00000e+10 1e+10
#> OMEGA4 1.00000e+10 1.00000e+10 1.00000e+10 1e+10 1.00000e+10 1e+10
#> OMEGA5 1.00000e+10 1.00000e+10 1.00000e+10 1e+10 3.37885e-02 1e+10
#> OMEGA6 1.00000e+10 1.00000e+10 1.00000e+10 1e+10 1.00000e+10 1e+10
#> OMEGA7 1.00000e+10 1.00000e+10 1.00000e+10 1e+10 1.00000e+10 1e+10
#> OMEGA7
#> OMEGA1 1.00000e+10
#> OMEGA2 1.00000e+10
#> OMEGA3 1.00000e+10
#> OMEGA4 1.00000e+10
#> OMEGA5 1.00000e+10
#> OMEGA6 1.00000e+10
#> OMEGA7 1.85393e-02
#>
#> $sigma
#> sigma1
#> sigma1 1
#>
#> $sigma.sd
#> sigma1
#> sigma1 1e+10
#>
#> $ofv
#> [1] 6130.993
#>
#> $fix
#> [1] "THETA7" "SIGMA.1.1." "OMEGA.2.1." "OMEGA.3.1." "OMEGA.3.2."
#> [6] "OMEGA.4.1." "OMEGA.4.2." "OMEGA.4.3." "OMEGA.4.4." "OMEGA.5.1."
#> [11] "OMEGA.5.2." "OMEGA.5.3." "OMEGA.5.4." "OMEGA.6.1." "OMEGA.6.2."
#> [16] "OMEGA.6.3." "OMEGA.6.4." "OMEGA.6.5." "OMEGA.6.6." "OMEGA.7.1."
#> [21] "OMEGA.7.2." "OMEGA.7.3." "OMEGA.7.4." "OMEGA.7.5." "OMEGA.7.6."
#>