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Type 'q()' to quit R. > library(testthat) > library(babelmixr2) Loading required package: nlmixr2 Loading required package: nlmixr2data > > 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.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_bd4d52301cc0dcb685e820b79198e960_x64.c:119: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition 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.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_ea4b2c8fd030f8e839270488a56e770e_x64.c:156: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition 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.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_eefa2b6e7f1fb2992d16f09311d6b308_x64.c:124: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition v done > compiling events FD model... using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_862d66c88d3527e05f3fce02807109cb_x64.c:124: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition v done [====|====|====|====|====|====|====|====|====|====] 0:00:16 > 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 > 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 using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_c5ab1effb80c1ef45dd29e3e076c2aac_x64.c:119: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_84c0aa8a0e67082bef6b86eea6ffe07e_x64.c:119: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_6ea0b940f76b8eee26a23dd8061863c6_x64.c:119: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition i Ds-optimality important parameters: tcl, tv i Ds-optimality unimportant parameters: eta.cl, eta.v, add.err i Ds-optimality important parameters: tcl, tv, eta.cl i Ds-optimality unimportant parameters: eta.v, add.err i Ds-optimality important parameters: tv i Ds-optimality unimportant parameters: tcl, eta.cl, eta.v, add.err i Ds-optimality important parameters: tcl, tv i Ds-optimality unimportant parameters: eta.cl, eta.v, add.err i Ds-optimality important parameters: tcl, tv i Ds-optimality unimportant parameters: eta.cl, eta.v, add.err using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_4ddc126acbc4aa6c9a338024faf2cd05_x64.c:119: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_0a093680cfdd874c8db21a04c91c973c_x64.c:119: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition i groupsize should be specified; but for now assuming 20 using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_b09dc575285a1495db1717b1ec6f2c8c_x64.c:119: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_df4b938bfcdbff304e3004414b617850_x64.c:119: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition i groupsize should be specified; but for now assuming 20 i assuming group size m=2 using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_27db0778a46eb37788005cd77fe37a3e_x64.c:120: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_b7c5eb28296d9d280918c0f8a71d59db_x64.c:120: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition i assuming group size m=2 using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_99dc40324902cec6e1bd28ec2a8c5757_x64.c:117: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_7f37a507a672b139950d3bdd83acda71_x64.c:117: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_5394aa94e1c862e0637608b6e222892a_x64.c:117: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_d04084519098ecf597f195c7718f0f4d_x64.c:117: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_15ce2ef67e30a5abe08e067d16ec86d9_x64.c:117: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_ddb6ad0dab35bb898059307fb4b6fb02_x64.c:119: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_913807f12b42a3f4b29b3c7989655352_x64.c:119: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition i ordering data by dvid and time i assuming group size m=3 using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_9dc2619aa11b3a2a75a23b30c57228ae_x64.c:117: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition using C compiler: 'gcc.exe (GCC) 13.2.0' In file included from D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2_model_shared.h:3, from rx_8fa7bc6880c702db94fc14c8e3be2128_x64.c:117: D:\RCompile\CRANincoming\R-devel\lib\rxode2\include/rxode2.h:3: warning: "STRICT_R_HEADERS" redefined 3 | #define STRICT_R_HEADERS | : note: this is the location of the previous definition i ordering data by dvid and time i assuming group size m=3 [ FAIL 0 | WARN 7 | SKIP 5 | PASS 357 ] ══ Skipped tests (5) ═══════════════════════════════════════════════════════════ • On CRAN (5): 'test-as-nlmixr2.R:8:3', 'test-as-nlmixr2.R:66:3', 'test-bioavil-works.R:2:3', 'test-poped.R:287:9', 'test-poped.R:429:5' [ FAIL 0 | WARN 7 | SKIP 5 | PASS 357 ] Deleting unused snapshots: • poped/poped-ped-next.svg • poped/pred-example2.svg > > proc.time() user system elapsed 397.64 46.14 520.17