Last updated on 2023-12-01 10:53:36 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.2.10 | 19.33 | 1095.65 | 1114.98 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 1.2.10 | 15.41 | 829.91 | 845.32 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.2.11 | 338.89 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 1.2.11 | 335.92 | NOTE | |||
| r-devel-windows-x86_64 | 1.2.10 | 19.00 | 781.00 | 800.00 | NOTE | |
| r-patched-linux-x86_64 | 1.2.10 | 21.11 | 974.81 | 995.92 | NOTE | |
| r-release-linux-x86_64 | 1.2.10 | 11.88 | 964.85 | 976.73 | NOTE | |
| r-release-macos-arm64 | 1.2.11 | 90.00 | NOTE | |||
| r-release-macos-x86_64 | 1.2.10 | 534.00 | ERROR | |||
| r-release-windows-x86_64 | 1.2.10 | 25.00 | 765.00 | 790.00 | NOTE | |
| r-oldrel-macos-arm64 | 1.2.11 | 78.00 | NOTE | |||
| r-oldrel-macos-x86_64 | 1.2.10 | 353.00 | NOTE | |||
| r-oldrel-windows-x86_64 | 1.2.10 | 25.00 | 737.00 | 762.00 | NOTE |
Version: 1.2.10
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
'captioner', 'lixoftConnectors'
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 1.2.10
Check: Rd files
Result: NOTE
checkRd: (-1) distrib.Rd:51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) distrib.Rd:52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) distrib.Rd:53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) distrib.Rd:54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) distrib.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) distrib.Rd:59: Lost braces in \itemize; meant \describe ?
checkRd: (-1) distrib.Rd:60: Lost braces in \itemize; meant \describe ?
checkRd: (-1) distrib.Rd:61: Lost braces in \itemize; meant \describe ?
checkRd: (-1) distrib.Rd:62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) eta_cov.Rd:52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) eta_cov.Rd:53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) eta_cov.Rd:54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmxOptions.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:45: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:46: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:59: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:60: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:65: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_dens.Rd:67: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_qq.Rd:66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_qq.Rd:67: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_qq.Rd:68: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_qq.Rd:73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_qq.Rd:74: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_qq.Rd:75: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_read_nm_model.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) pmx_read_nm_model.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) pmx_read_nm_model.Rd:31-34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) pmx_read_nm_model.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) pmx_read_nm_model.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) pmx_vpc_ci.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_ci.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_ci.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_ci.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_ci.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_ci.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_ci.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_ci.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:18-19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:45: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmx_vpc_pi.Rd:46: Lost braces in \itemize; meant \describe ?
checkRd: (-1) residual.Rd:57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) residual.Rd:58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) residual.Rd:59: Lost braces in \itemize; meant \describe ?
checkRd: (-1) residual.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) residual.Rd:65: Lost braces in \itemize; meant \describe ?
checkRd: (-1) residual.Rd:66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) residual.Rd:67: Lost braces in \itemize; meant \describe ?
checkRd: (-1) set_plot.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) set_plot.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) set_plot.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) set_plot.Rd:42: Lost braces
42 | \item{trans}{\code{list}{transformation operator}}
| ^
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc
Version: 1.2.10
Check: tests
Result: ERROR
Running ‘testthat.R’ [14m/10m]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(ggPMX)
>
> test_check("ggPMX")
style: equal
one of 8 possible partitions of this variable into 2 classes
[0,6) [6,12]
6 3
|data_name |data_file |data_label |
|:---------|:---------|:----------|
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
|data_name |data_file |data_label |
|:---------|:---------|:----------|
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
character(0)
|data_name |data_file |data_label |
|:---------|:---------|:----------|
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
$is.title
[1] TRUE
$axis.title
$axis.title$size
[1] 12
$axis.text
$axis.text$size
[1] 10
$ranges
NULL
$is.smooth
[1] TRUE
$smooth
$smooth$se
[1] FALSE
$smooth$linetype
[1] 1
$smooth$linewidth
[1] 1.5
$smooth$method
[1] "loess"
$smooth$colour
[1] "red"
$is.band
[1] FALSE
$band
$band$yintercept
[1] -1.96 1.96
$band$linetype
[1] 2
$band$linewidth
[1] 0.5
$is.draft
[1] TRUE
$draft
$draft$size
[1] 5
$draft$label
[1] "DRAFT"
$draft$colour
[1] "grey50"
$draft$x
[1] Inf
$draft$y
[1] -Inf
$discrete
[1] FALSE
$is.identity_line
[1] FALSE
$identity_line
$identity_line$colour
[1] "blue"
$identity_line$intercept
[1] 0
$scale_x_log10
[1] FALSE
$scale_y_log10
[1] FALSE
$color.scales
NULL
$is.legend
[1] FALSE
$legend.position
[1] "right"
$labels
$labels$title
[1] "hello"
$is.title
[1] TRUE
$axis.title
$axis.title$size
[1] 12
$axis.text
$axis.text$size
[1] 10
$ranges
NULL
$is.smooth
[1] TRUE
$smooth
$smooth$se
[1] FALSE
$smooth$linetype
[1] 1
$smooth$linewidth
[1] 1.5
$smooth$method
[1] "loess"
$smooth$colour
[1] "red"
$is.band
[1] FALSE
$band
$band$yintercept
[1] -1.96 1.96
$band$linetype
[1] 2
$band$linewidth
[1] 0.5
$is.draft
[1] TRUE
$draft
$draft$size
[1] 5
$draft$label
[1] "DRAFT"
$draft$colour
[1] "grey50"
$draft$x
[1] Inf
$draft$y
[1] -Inf
$discrete
[1] FALSE
$is.identity_line
[1] FALSE
$identity_line
$identity_line$colour
[1] "blue"
$identity_line$intercept
[1] 0
$scale_x_log10
[1] FALSE
$scale_y_log10
[1] FALSE
$color.scales
NULL
$is.legend
[1] FALSE
$legend.position
[1] "right"
$labels
$labels$title
[1] "hello"
No data eta provided for plot eta_hist
No data eta provided for plot eta_box
No data eta provided for plot eta_matrix
No data eta provided for plot eta_cats
No data eta provided for plot eta_conts
No data eta provided for plot eta_qq
No data eta provided for plot eta_hist
No data eta provided for plot eta_box
No data eta provided for plot eta_matrix
No data eta provided for plot eta_cats
No data eta provided for plot eta_conts
No data eta provided for plot eta_qq
No data IND1 provided for plot individual
ID TIME PRED IPRED AMT Y EVID WT0 AGE0 SEX STUD DV isobserv
1: 1 0.2182 51.3092 53.6590 2000 0 1 87 73 1 1 NA accepted
2: 1 0.5091 112.9294 118.0946 0 130 0 87 73 1 1 NA accepted
3: 1 0.8000 167.4284 175.0867 0 130 0 87 73 1 1 NA accepted
4: 1 1.0909 215.4506 225.3192 0 228 0 87 73 1 1 NA accepted
5: 1 1.3818 257.5859 269.4167 0 228 0 87 73 1 1 NA accepted
---
4546: 50 25.2364 49.0518 84.7612 0 121 0 92 19 1 2 NA accepted
4547: 50 25.5273 47.1749 82.1470 0 121 0 92 19 1 2 NA accepted
4548: 50 25.8182 45.3679 79.6108 0 121 0 92 19 1 2 NA accepted
4549: 50 26.1091 43.6283 77.1504 0 121 0 92 19 1 2 NA accepted
4550: 50 26.4000 41.9537 74.7639 0 121 0 92 19 1 2 NA accepted
pmx object:
pmx object:
|PARAM |VALUE |
|:--------------------|:-----|
|working directory | |
|Modelling input file | |
|dv |Y |
|dvid |DVID |
|data_name |data_file |data_label |
|:-----------|:---------------|:-----------------------------------------|
|predictions |predictions.txt |model predictions file |
|estimates |estimates.txt |parameter estimates file |
|eta |indiv_eta.txt |invidual estimates of random effects file |
|finegrid |finegrid.txt |finegrid file |
|input |data_pk.csv |modelling input |
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
pmx object:
|PARAM |VALUE |
|:--------------------|:-----|
|working directory | |
|Modelling input file | |
|dv |Y |
|dvid |DVID |
|data_name |data_file |data_label |
|:-----------|:---------------|:-----------------------------------------|
|predictions |predictions.txt |model predictions file |
|estimates |estimates.txt |parameter estimates file |
|eta |indiv_eta.txt |invidual estimates of random effects file |
|finegrid |finegrid.txt |finegrid file |
|input |data_pk.csv |modelling input |
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
pmx object:
|PARAM |VALUE |
|:--------------------|:------------|
|working directory |theophylline |
|Modelling input file |data_pk.csv |
|dv |Y |
|dvid |dvid |
|cats |SEX |
|conts |WT0,AGE0 |
|strats |STUD |
|data_name |data_file |data_label |
|:-----------|:---------------|:-----------------------------------------|
|predictions |predictions.txt |model predictions file |
|estimates |estimates.txt |parameter estimates file |
|eta |indiv_eta.txt |invidual estimates of random effects file |
|finegrid |finegrid.txt |finegrid file |
|input |data_pk.csv |modelling input |
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
use predictions1.txt as model predictions file .
use finegrid1.txt as finegrid file .
use predictions2.txt as model predictions file .
use finegrid2.txt as finegrid file .
[ FAIL 1 | WARN 28 | SKIP 18 | PASS 1017 ]
══ Skipped tests (18) ══════════════════════════════════════════════════════════
• On CRAN (16): 'test-nlmixr.R:3:5', 'test-nlmixr.R:42:5',
'test-nlmixr.R:115:5', 'test-pmx-report.R:56:3', 'test-pmx-report.R:142:3',
'test-pmx-report.R:151:3', 'test-pmx-report.R:161:3',
'test-pmx-report.R:178:3', 'test-pmx-report.R:224:5',
'test-pmx-report.R:258:3', 'test-pmx-report.R:292:3',
'test-pmx-report.R:347:3', 'test-pmx-report.R:381:3',
'test-pmx-report.R:397:3', 'test-pmx-report.R:450:3', 'test-utils.R:100:3'
• TRUE is TRUE (1): 'test-vdiff.R:3:3'
• empty test (1): 'test-nonmem_reader.R:77:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-reader.R:88:3'): read_mlx18_res: 11params: path is wrong, subfolder is not empty,
file exists; result: identical structure ──
read_mlx18_res(ipath, x$finegrid) is not an S3 object
[ FAIL 1 | WARN 28 | SKIP 18 | PASS 1017 ]
Deleting unused snapshots:
• vdiff/fun-pmx-plot-abs-iwres-ipred.svg
• vdiff/fun-pmx-plot-dv-ipred.svg
• vdiff/fun-pmx-plot-dv-pred.svg
• vdiff/fun-pmx-plot-eta-box.svg
• vdiff/fun-pmx-plot-eta-cats.svg
• vdiff/fun-pmx-plot-eta-conts.svg
• vdiff/fun-pmx-plot-eta-hist.svg
• vdiff/fun-pmx-plot-eta-matrix.svg
• vdiff/fun-pmx-plot-eta-qq.svg
• vdiff/fun-pmx-plot-individual.svg
• vdiff/fun-pmx-plot-iwres-dens.svg
• vdiff/fun-pmx-plot-iwres-ipred.svg
• vdiff/fun-pmx-plot-iwres-qq.svg
• vdiff/fun-pmx-plot-iwres-time.svg
• vdiff/fun-pmx-plot-npde-pred.svg
• vdiff/fun-pmx-plot-npde-qq.svg
• vdiff/fun-pmx-plot-npde-time.svg
• vdiff/fun-pmx-plot-vpc.svg
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.2.10
Check: tests
Result: ERROR
Running ‘testthat.R’ [11m/14m]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(ggPMX)
>
> test_check("ggPMX")
style: equal
one of 8 possible partitions of this variable into 2 classes
[0,6) [6,12]
6 3
|data_name |data_file |data_label |
|:---------|:---------|:----------|
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
|data_name |data_file |data_label |
|:---------|:---------|:----------|
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
character(0)
|data_name |data_file |data_label |
|:---------|:---------|:----------|
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
$is.title
[1] TRUE
$axis.title
$axis.title$size
[1] 12
$axis.text
$axis.text$size
[1] 10
$ranges
NULL
$is.smooth
[1] TRUE
$smooth
$smooth$se
[1] FALSE
$smooth$linetype
[1] 1
$smooth$linewidth
[1] 1.5
$smooth$method
[1] "loess"
$smooth$colour
[1] "red"
$is.band
[1] FALSE
$band
$band$yintercept
[1] -1.96 1.96
$band$linetype
[1] 2
$band$linewidth
[1] 0.5
$is.draft
[1] TRUE
$draft
$draft$size
[1] 5
$draft$label
[1] "DRAFT"
$draft$colour
[1] "grey50"
$draft$x
[1] Inf
$draft$y
[1] -Inf
$discrete
[1] FALSE
$is.identity_line
[1] FALSE
$identity_line
$identity_line$colour
[1] "blue"
$identity_line$intercept
[1] 0
$scale_x_log10
[1] FALSE
$scale_y_log10
[1] FALSE
$color.scales
NULL
$is.legend
[1] FALSE
$legend.position
[1] "right"
$labels
$labels$title
[1] "hello"
$is.title
[1] TRUE
$axis.title
$axis.title$size
[1] 12
$axis.text
$axis.text$size
[1] 10
$ranges
NULL
$is.smooth
[1] TRUE
$smooth
$smooth$se
[1] FALSE
$smooth$linetype
[1] 1
$smooth$linewidth
[1] 1.5
$smooth$method
[1] "loess"
$smooth$colour
[1] "red"
$is.band
[1] FALSE
$band
$band$yintercept
[1] -1.96 1.96
$band$linetype
[1] 2
$band$linewidth
[1] 0.5
$is.draft
[1] TRUE
$draft
$draft$size
[1] 5
$draft$label
[1] "DRAFT"
$draft$colour
[1] "grey50"
$draft$x
[1] Inf
$draft$y
[1] -Inf
$discrete
[1] FALSE
$is.identity_line
[1] FALSE
$identity_line
$identity_line$colour
[1] "blue"
$identity_line$intercept
[1] 0
$scale_x_log10
[1] FALSE
$scale_y_log10
[1] FALSE
$color.scales
NULL
$is.legend
[1] FALSE
$legend.position
[1] "right"
$labels
$labels$title
[1] "hello"
No data eta provided for plot eta_hist
No data eta provided for plot eta_box
No data eta provided for plot eta_matrix
No data eta provided for plot eta_cats
No data eta provided for plot eta_conts
No data eta provided for plot eta_qq
No data eta provided for plot eta_hist
No data eta provided for plot eta_box
No data eta provided for plot eta_matrix
No data eta provided for plot eta_cats
No data eta provided for plot eta_conts
No data eta provided for plot eta_qq
No data IND1 provided for plot individual
ID TIME PRED IPRED AMT Y EVID WT0 AGE0 SEX STUD DV isobserv
1: 1 0.2182 51.3092 53.6590 2000 0 1 87 73 1 1 NA accepted
2: 1 0.5091 112.9294 118.0946 0 130 0 87 73 1 1 NA accepted
3: 1 0.8000 167.4284 175.0867 0 130 0 87 73 1 1 NA accepted
4: 1 1.0909 215.4506 225.3192 0 228 0 87 73 1 1 NA accepted
5: 1 1.3818 257.5859 269.4167 0 228 0 87 73 1 1 NA accepted
---
4546: 50 25.2364 49.0518 84.7612 0 121 0 92 19 1 2 NA accepted
4547: 50 25.5273 47.1749 82.1470 0 121 0 92 19 1 2 NA accepted
4548: 50 25.8182 45.3679 79.6108 0 121 0 92 19 1 2 NA accepted
4549: 50 26.1091 43.6283 77.1504 0 121 0 92 19 1 2 NA accepted
4550: 50 26.4000 41.9537 74.7639 0 121 0 92 19 1 2 NA accepted
pmx object:
pmx object:
|PARAM |VALUE |
|:--------------------|:-----|
|working directory | |
|Modelling input file | |
|dv |Y |
|dvid |DVID |
|data_name |data_file |data_label |
|:-----------|:---------------|:-----------------------------------------|
|predictions |predictions.txt |model predictions file |
|estimates |estimates.txt |parameter estimates file |
|eta |indiv_eta.txt |invidual estimates of random effects file |
|finegrid |finegrid.txt |finegrid file |
|input |data_pk.csv |modelling input |
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
pmx object:
|PARAM |VALUE |
|:--------------------|:-----|
|working directory | |
|Modelling input file | |
|dv |Y |
|dvid |DVID |
|data_name |data_file |data_label |
|:-----------|:---------------|:-----------------------------------------|
|predictions |predictions.txt |model predictions file |
|estimates |estimates.txt |parameter estimates file |
|eta |indiv_eta.txt |invidual estimates of random effects file |
|finegrid |finegrid.txt |finegrid file |
|input |data_pk.csv |modelling input |
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
pmx object:
|PARAM |VALUE |
|:--------------------|:------------|
|working directory |theophylline |
|Modelling input file |data_pk.csv |
|dv |Y |
|dvid |dvid |
|cats |SEX |
|conts |WT0,AGE0 |
|strats |STUD |
|data_name |data_file |data_label |
|:-----------|:---------------|:-----------------------------------------|
|predictions |predictions.txt |model predictions file |
|estimates |estimates.txt |parameter estimates file |
|eta |indiv_eta.txt |invidual estimates of random effects file |
|finegrid |finegrid.txt |finegrid file |
|input |data_pk.csv |modelling input |
|plot_name |plot_type |
|:---------------|:---------|
|abs_iwres_ipred |SCATTER |
|abs_iwres_time |SCATTER |
|iwres_ipred |SCATTER |
|iwres_time |SCATTER |
|iwres_dens |PMX_DENS |
|iwres_qq |PMX_QQ |
|npde_time |SCATTER |
|npde_pred |SCATTER |
|npde_qq |PMX_QQ |
|dv_pred |SCATTER |
|dv_ipred |SCATTER |
|individual |IND |
|eta_hist |DIS |
|eta_box |DIS |
|eta_matrix |ETA_PAIRS |
|eta_cats |ETA_COV |
|eta_conts |ETA_COV |
|eta_qq |PMX_QQ |
|pmx_vpc |VPC |
use predictions1.txt as model predictions file .
use finegrid1.txt as finegrid file .
use predictions2.txt as model predictions file .
use finegrid2.txt as finegrid file .
[ FAIL 1 | WARN 28 | SKIP 18 | PASS 1017 ]
══ Skipped tests (18) ══════════════════════════════════════════════════════════
• On CRAN (16): 'test-nlmixr.R:3:5', 'test-nlmixr.R:42:5',
'test-nlmixr.R:115:5', 'test-pmx-report.R:56:3', 'test-pmx-report.R:142:3',
'test-pmx-report.R:151:3', 'test-pmx-report.R:161:3',
'test-pmx-report.R:178:3', 'test-pmx-report.R:224:5',
'test-pmx-report.R:258:3', 'test-pmx-report.R:292:3',
'test-pmx-report.R:347:3', 'test-pmx-report.R:381:3',
'test-pmx-report.R:397:3', 'test-pmx-report.R:450:3', 'test-utils.R:100:3'
• TRUE is TRUE (1): 'test-vdiff.R:3:3'
• empty test (1): 'test-nonmem_reader.R:77:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-reader.R:88:3'): read_mlx18_res: 11params: path is wrong, subfolder is not empty,
file exists; result: identical structure ──
read_mlx18_res(ipath, x$finegrid) is not an S3 object
[ FAIL 1 | WARN 28 | SKIP 18 | PASS 1017 ]
Deleting unused snapshots:
• vdiff/fun-pmx-plot-abs-iwres-ipred.svg
• vdiff/fun-pmx-plot-dv-ipred.svg
• vdiff/fun-pmx-plot-dv-pred.svg
• vdiff/fun-pmx-plot-eta-box.svg
• vdiff/fun-pmx-plot-eta-cats.svg
• vdiff/fun-pmx-plot-eta-conts.svg
• vdiff/fun-pmx-plot-eta-hist.svg
• vdiff/fun-pmx-plot-eta-matrix.svg
• vdiff/fun-pmx-plot-eta-qq.svg
• vdiff/fun-pmx-plot-individual.svg
• vdiff/fun-pmx-plot-iwres-dens.svg
• vdiff/fun-pmx-plot-iwres-ipred.svg
• vdiff/fun-pmx-plot-iwres-qq.svg
• vdiff/fun-pmx-plot-iwres-time.svg
• vdiff/fun-pmx-plot-npde-pred.svg
• vdiff/fun-pmx-plot-npde-qq.svg
• vdiff/fun-pmx-plot-npde-time.svg
• vdiff/fun-pmx-plot-vpc.svg
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.2.11
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘lixoftConnectors’
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-release-macos-arm64, r-oldrel-macos-arm64
Version: 1.2.11
Check: installed package size
Result: NOTE
installed size is 9.0Mb
sub-directories of 1Mb or more:
doc 1.1Mb
help 2.4Mb
testdata 4.8Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-release-macos-arm64, r-oldrel-macos-arm64
Version: 1.2.10
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: 'lixoftConnectors'
Flavors: r-devel-windows-x86_64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64
Version: 1.2.10
Check: installed package size
Result: NOTE
installed size is 8.8Mb
sub-directories of 1Mb or more:
doc 1.1Mb
help 2.4Mb
testdata 4.8Mb
Flavors: r-devel-windows-x86_64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64
Version: 1.2.10
Check: tests
Result: ERROR
Running ‘testthat.R’ [222s/364s]
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
• vdiff/fun-pmx-plot-eta-conts.svg
• vdiff/fun-pmx-plot-eta-hist.svg
• vdiff/fun-pmx-plot-eta-matrix.svg
• vdiff/fun-pmx-plot-eta-qq.svg
• vdiff/fun-pmx-plot-individual.svg
• vdiff/fun-pmx-plot-iwres-dens.svg
• vdiff/fun-pmx-plot-iwres-ipred.svg
• vdiff/fun-pmx-plot-iwres-qq.svg
• vdiff/fun-pmx-plot-iwres-time.svg
• vdiff/fun-pmx-plot-npde-pred.svg
• vdiff/fun-pmx-plot-npde-qq.svg
• vdiff/fun-pmx-plot-npde-time.svg
• vdiff/fun-pmx-plot-vpc.svg
Error: Test failures
Execution halted
Flavor: r-release-macos-x86_64