Copy model object to iterate over base model
copyModel.RdCopies previously executed model into a new object and optionally accept all estimates returned from model execution. A new working directory is created and all files from base model are copied into it.
Arguments
- model
Model object to be copied
- acceptAllEffects
Set to
TRUEto accept all effects, update PML statements, and test.mdl file from original model run- modelName
New model name for subdirectory created for model output. Subdirectory is created in current working directory.
- workingDir
Working directory to run the model. Current working directory will be used if workingDir not specified.
Examples
# \donttest{
# Create initial model
model <- pkmodel(
parameterization = "Clearance",
absorption = "Intravenous",
numCompartments = 2,
data = pkData,
ID = "Subject",
A1 = "Amount",
CObs = "Conc",
Time = "Act_Time",
modelName = "pk_model"
)
# Fit Model
job <- fitmodel(model)
#> Using MPI host with 4 cores
#>
#> NLME Job
#> sharedDirectory is not given in the host class instance.
#> Valid NLME_ROOT_DIRECTORY is not given, using current working directory:
#> C:/Users/jcraig/Documents/GitHub/R-RsNLME/docs/reference
#>
#> Compiling 1 of 1 NLME models
#> TDL5 version: 24.9.1.1
#>
#> Status: OK
#> License expires: 2026-04-08
#> Refresh until: 2025-05-07 20:38:27
#> Current Date: 2025-04-07
#> The model compiled
#>
#>
#> Iteration -2LL tvV tvCl tvV2 tvCl2 nSubj nObs
#> 1 1734.38 1.07796 1.05372 1.10597 1.07380 16 112
#> 2 1640.76 1.19901 1.16447 1.21074 1.19472 16 112
#> 3 1587.09 1.35133 1.31271 1.35521 1.34724 16 112
#> 4 1559.94 1.51691 1.47592 1.51570 1.51267 16 112
#> 5 1545.53 1.69253 1.65038 1.68761 1.68812 16 112
#> 6 1537.46 1.87322 1.83076 1.86587 1.86828 16 112
#> 7 1532.81 2.04832 2.00610 2.03978 2.04280 16 112
#> 8 1530.43 2.19847 2.15746 2.19006 2.19264 16 112
#> 9 1529.44 2.28870 2.24956 2.28142 2.28275 16 112
#> 10 1528.44 2.36768 2.33174 2.36244 2.36178 16 112
#> 11 1525.84 2.52046 2.49445 2.52134 2.51486 16 112
#> 12 1519.67 2.80483 2.80466 2.82032 2.80038 16 112
#> 13 1515.10 3.21194 3.25592 3.24936 3.20963 16 112
#> 14 1510.03 3.05238 3.08750 3.07917 3.04942 16 112
#> 15 1504.03 3.18762 3.25244 3.21772 3.18563 16 112
#> 16 1503.29 3.75212 3.93610 3.79491 3.75353 16 112
#> 17 1495.99 3.57164 3.73550 3.60451 3.57215 16 112
#> 18 1493.74 3.72773 3.93150 3.76212 3.72926 16 112
#> 19 1486.86 4.46486 4.87109 4.50720 4.47162 16 112
#> 20 1482.33 4.54962 4.99801 4.59027 4.55754 16 112
#> 21 1465.23 5.63303 6.49837 5.67268 5.65262 16 112
#> 22 1449.27 6.59887 7.94730 6.63178 6.63436 16 112
#> 23 1448.20 6.63453 8.02035 6.66403 6.67397 16 112
#> 24 1447.20 6.48840 7.81175 6.50995 6.53610 16 112
#> 25 1445.80 6.66308 8.03269 6.67198 6.72787 16 112
#> 26 1443.68 7.05368 8.50609 7.03508 7.15239 16 112
#> 27 1442.28 7.73989 9.30359 7.67427 7.88704 16 112
#> 28 1439.90 8.00197 9.57586 7.91965 8.15561 16 112
#> 29 1438.04 8.71977 10.37810 8.58723 8.90172 16 112
#> 30 1433.56 10.51470 12.38290 10.24620 10.76480 16 112
#> 31 1430.80 13.20840 15.39390 12.73360 13.55560 16 112
#> 32 1426.24 13.39910 15.55390 12.89450 13.73680 16 112
#> 33 1423.81 13.37820 15.51600 12.86180 13.71630 16 112
#> 34 1420.55 13.70890 15.83190 13.11970 14.05080 16 112
#> 35 1419.51 13.04010 15.05450 12.47940 13.35950 16 112
#> 36 1418.94 13.20170 15.18740 12.60690 13.52300 16 112
#> 37 1418.52 13.34050 15.25530 12.69030 13.65650 16 112
#> 38 1418.36 13.37370 15.22970 12.68750 13.68070 16 112
#> 39 1418.06 13.40110 15.13910 12.64770 13.68500 16 112
#> 40 1417.51 13.43880 14.93790 12.55190 13.66830 16 112
#> 41 1416.28 13.54310 14.48840 12.34650 13.63650 16 112
#> 42 1412.63 13.81930 13.15790 11.73050 13.50180 16 112
#> 43 1407.84 14.02130 11.77100 11.06010 13.29600 16 112
#> 44 1396.03 14.26380 9.51721 9.94067 12.90450 16 112
#> 45 1395.16 14.29720 9.34148 9.85834 12.88540 16 112
#> 46 1393.35 14.74660 9.26154 9.97137 13.20540 16 112
#> 47 1392.09 15.37510 9.54412 10.34430 13.74600 16 112
#> 48 1391.28 15.54000 9.56985 10.42690 13.86320 16 112
#> 49 1389.36 15.99990 9.88680 10.78810 14.24390 16 112
#> 50 1383.23 16.82190 10.23320 11.36040 14.80120 16 112
#> 51 1369.52 18.30030 10.88910 12.42670 15.78270 16 112
#> 52 1369.33 17.92850 10.52810 12.09090 15.44410 16 112
#> 53 1368.42 17.88140 10.44130 12.04870 15.36520 16 112
#> 54 1366.48 17.61510 10.38310 11.94490 15.13790 16 112
#> 55 1363.06 16.78580 10.04080 11.47630 14.45060 16 112
#> 56 1362.31 13.82850 8.69583 9.76333 11.93010 16 112
#> 57 1357.67 15.93530 9.66199 10.99520 13.73650 16 112
#> 58 1355.79 15.74690 9.56148 10.89120 13.57230 16 112
#> 59 1355.65 15.58150 9.41209 10.79040 13.40820 16 112
#> 60 1355.00 15.68560 9.44333 10.83690 13.49060 16 112
#> 61 1354.90 15.68560 9.41837 10.83000 13.49110 16 112
#> 62 1354.80 15.68740 9.37022 10.82650 13.48340 16 112
#> 63 1354.61 15.70510 9.29862 10.83830 13.48970 16 112
#> 64 1353.66 15.72660 8.80199 10.87760 13.46370 16 112
#> 65 1352.13 15.77960 8.26341 10.97590 13.48090 16 112
#> 66 1349.69 15.87630 7.49375 11.15190 13.53640 16 112
#> 67 1348.18 16.29090 6.02434 11.68150 13.86540 16 112
#> 68 1346.34 16.71400 6.71746 11.93300 14.29090 16 112
#> 69 1345.37 16.43280 6.82777 11.72850 14.04620 16 112
#> 70 1345.16 16.42540 6.64103 11.76870 14.03860 16 112
#> 71 1345.13 16.45730 6.57512 11.81440 14.06960 16 112
#> 72 1345.11 16.48070 6.56530 11.85440 14.09680 16 112
#> 73 1345.06 16.47850 6.55807 11.89300 14.10530 16 112
#> 74 1344.80 16.45650 6.57700 12.10850 14.14470 16 112
#> 75 1344.41 16.39200 6.57185 12.45800 14.18110 16 112
#> 76 1343.45 16.19350 6.59046 13.30500 14.23230 16 112
#> 77 1341.39 15.78050 6.60390 15.30820 14.37450 16 112
#> 78 1337.19 15.05110 6.65227 19.61790 14.76860 16 112
#> 79 1327.88 13.93180 6.70938 28.02470 15.71720 16 112
#> 80 1302.82 12.80220 6.76827 38.86270 17.14170 16 112
#> 81 1284.74 12.33980 6.79452 43.29190 17.72490 16 112
#> 82 1282.34 12.76410 6.77007 41.87900 17.70010 16 112
#> 83 1279.32 13.15660 6.72522 39.98650 17.56910 16 112
#> 84 1277.51 13.16020 6.62288 41.20580 17.80480 16 112
#> 85 1276.86 13.41570 6.58475 40.84230 17.89380 16 112
#> 86 1276.27 13.89050 6.52270 40.70480 18.16860 16 112
#> 87 1276.13 14.08000 6.52653 40.79190 18.30560 16 112
#> 88 1276.05 14.20080 6.54900 40.96770 18.41330 16 112
#> 89 1276.01 14.20620 6.56174 41.01130 18.41290 16 112
#> 90 1275.87 14.31720 6.60695 41.11430 18.43160 16 112
#> 91 1275.68 14.34790 6.62197 41.15470 18.37020 16 112
#> 92 1273.84 14.55290 6.75451 41.40800 17.47950 16 112
#> 93 1271.14 14.86770 6.88971 41.58780 15.89640 16 112
#> 94 1269.45 15.41650 6.99641 41.70710 12.99820 16 112
#> 95 1267.17 15.67980 6.82707 41.49850 14.43090 16 112
#> 96 1266.02 15.77030 6.69588 41.32660 14.35680 16 112
#> 97 1265.63 15.43280 6.57327 41.14070 14.04780 16 112
#> 98 1265.59 15.43120 6.59821 41.17400 14.03770 16 112
#> 99 1265.59 15.40390 6.59947 41.18690 14.02430 16 112
#> 100 1265.59 15.39370 6.59984 41.19000 14.02580 16 112
#>
#> Trying to generate job results...
#>
#> Generating Overall.csv
#> Generating EtaEta.csv
#> Generating Eta.csv
#> Generating EtaStacked.csv
#> Generating bluptable.dat
#> Generating ConvergenceData.csv
#> Generating initest.csv
#> Generating doses.csv
#> Generating omega.csv
#> Generating omega_stderr.csv
#> Generating theta.csv
#> Generating thetaCorrelation.csv
#> Generating thetaCovariance.csv
#> Generating Covariance.csv
#> Generating Residuals.csv
#> Generating posthoc.csv
#>
#> Finished summarizing results. Transferring data and loading the results...
#> Done generating job results.
# Copy model and accept all effects from the original model run
vpcModel <- copyModel(model, acceptAllEffects = TRUE, modelName = "vpc_model")
# }