Last updated on 2018-05-24 17:49:52 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.0.5 | 14.97 | 97.69 | 112.66 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.0.5 | 12.09 | 82.48 | 94.57 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.0.5 | 155.35 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.0.5 | 146.70 | ERROR | |||
| r-devel-windows-ix86+x86_64 | 0.0.5 | 20.00 | 122.00 | 142.00 | ERROR | |
| r-patched-linux-x86_64 | 0.0.5 | 16.87 | 95.75 | 112.62 | ERROR | |
| r-patched-solaris-x86 | 0.0.5 | 190.70 | ERROR | |||
| r-release-linux-x86_64 | 0.0.5 | 13.04 | 94.87 | 107.91 | ERROR | |
| r-release-windows-ix86+x86_64 | 0.0.5 | 28.00 | 253.00 | 281.00 | OK | |
| r-release-osx-x86_64 | 0.0.5 | ERROR | ||||
| r-oldrel-windows-ix86+x86_64 | 0.0.5 | 14.00 | 117.00 | 131.00 | ERROR | |
| r-oldrel-osx-x86_64 | 0.0.5 | OK |
Version: 0.0.5
Check: examples
Result: ERROR
Running examples in ‘uwIntroStats-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: regress
> ### Title: General Regression for an Arbitrary Functional
> ### Aliases: regress fitted.uRegress print.augCoefficients print.uRegress
> ### uLRtest uWaldtest termTraverse explode indentNames getLevels testList
> ### pasteTwo processTerm addArgs pasteOn pasteOnSpline pastePair
> ### movingSum myNext reFormatReg createCols checkNesting splitOnParen
> ### reFormat equal
> ### Keywords: ~kwd1 ~kwd2
>
> ### ** Examples
>
> # Loading required libraries
> library(survival)
> library(sandwich)
>
> # Reading in a dataset
> mri <- read.table("http://www.emersonstatistics.com/datasets/mri.txt",header=TRUE)
>
> # Creating a Surv object to reflect time to death
> mri$ttodth <- Surv(mri$obstime,mri$death)
>
> # Attaching the mri dataset
> attach(mri)
>
> # Linear regression of atrophy on age
> regress("mean", atrophy~age, data=mri)
Call:
regress(fnctl = "mean", formula = atrophy ~ age, data = mri)
Residuals:
Min 1Q Median 3Q Max
-36.870 -8.589 -0.870 7.666 51.203
Coefficients:
Estimate Naive SE Robust SE 95%L 95%H
[1] Intercept -16.06 6.256 6.701 -29.22 -2.907
[2] age 0.6980 0.08368 0.09002 0.5213 0.8747
F stat df Pr(>F)
[1] Intercept 5.75 1 0.0168
[2] age 60.12 1 < 0.00005
Residual standard error: 12.36 on 733 degrees of freedom
Multiple R-squared: 0.08669, Adjusted R-squared: 0.08545
F-statistic: 60.12 on 1 and 733 DF, p-value: 2.988e-14
>
> ## Linear regression of atrophy on male and race and their interaction,
> ## with a multiple-partial F-test on the race-age interaction
> regress("mean", atrophy~ male + U(ra=~race*age), data=mri)
Call:
regress(fnctl = "mean", formula = atrophy ~ male + U(ra = ~race *
age), data = mri)
Residuals:
Min 1Q Median 3Q Max
-33.438 -8.368 -0.462 7.372 53.253
Coefficients:
Estimate Naive SE Robust SE 95%L 95%H
[1] Intercept 2.199 13.24 14.53 -26.33 30.73
[2] male 6.003 0.8850 0.8815 4.273 7.734
ra
[3] race -15.30 8.902 9.660 -34.26 3.664
[4] age 0.4255 0.1770 0.1943 0.04399 0.8070
[5] race:age 0.1954 0.1186 0.1287 -0.05726 0.4481
F stat df Pr(>F)
[1] Intercept 0.02 1 0.8798
[2] male 46.37 1 < 0.00005
ra 21.51 3 < 0.00005
[3] race 2.51 1 0.1137
[4] age 4.79 1 0.0289
[5] race:age 2.31 1 0.1293
Residual standard error: 11.99 on 730 degrees of freedom
Multiple R-squared: 0.1443, Adjusted R-squared: 0.1397
F-statistic: 27.23 on 4 and 730 DF, p-value: < 2.2e-16
>
> ## Linear regression of atrophy on age, male, race (as a dummy variable), chf,
> ## and diabetes. There are two multiple partial F-tests and both are named
> regress("mean", atrophy~age+male+U(rc=~dummy(race)+chf)+U(md=~male+diabetes), data=mri)
Call:
regress(fnctl = "mean", formula = atrophy ~ age + male + U(rc = ~dummy(race) +
chf) + U(md = ~male + diabetes), data = mri)
Residuals:
Min 1Q Median 3Q Max
-34.003 -8.611 -0.572 7.279 54.064
Coefficients:
Estimate Naive SE Robust SE 95%L 95%H
[1] Intercept -17.95 6.088 6.593 -30.90 -5.009
[2] age 0.6862 0.08142 0.08840 0.5127 0.8598
[3] male 5.879 0.8952 0.8942 4.123 7.635
rc
dummy(race)
[4] race.2 -2.147 1.285 1.255 -4.611 0.3176
[5] race.3 0.1829 1.826 1.796 -3.343 3.709
[6] race.4 -2.734 3.508 3.798 -10.19 4.722
[7] chf 1.919 1.943 2.179 -2.358 6.197
md
male 5.879 0.8952 0.8942 4.123 7.635
[8] diabetes 0.6524 1.450 1.267 -1.836 3.141
F stat df Pr(>F)
[1] Intercept 7.41 1 0.0066
[2] age 60.25 1 < 0.00005
[3] male 43.23 1 < 0.00005
rc 1.09 4 0.3598
dummy(race) 1.14 3 0.3336
[4] race.2 2.92 1 0.0877
[5] race.3 0.01 1 0.9189
[6] race.4 0.52 1 0.4718
[7] chf 0.78 1 0.3787
md 22.84 2 < 0.00005
male 43.23 1 < 0.00005
[8] diabetes 0.26 1 0.6069
Dummy terms calculated from race, reference = 1
Residual standard error: 12 on 727 degrees of freedom
Multiple R-squared: 0.1453, Adjusted R-squared: 0.1371
F-statistic: 15.31 on 7 and 727 DF, p-value: < 2.2e-16
>
> ## Proportional hazards regression clustered on id
> ## (here it makes no difference because the ids are unique)
> regress("hazard", ttodth~ldl, id=ptid, data=mri)
Warning in coxph(formula, data = data, ...) :
a variable appears on both the left and right sides of the formula
Error in eval(predvars, data, env) :
invalid 'envir' argument of type 'closure'
Calls: regress ... eval -> eval -> <Anonymous> -> model.frame.default -> eval
Execution halted
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: 0.0.5
Check: re-building of vignette outputs
Result: WARN
Error in re-building vignettes:
...
Quitting from lines 92-93 (regress_intro.Rmd)
Error: processing vignette ‘regress_intro.Rmd’ failed with diagnostics:
object ‘ttodth’ not found
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-oldrel-windows-ix86+x86_64
Version: 0.0.5
Check: examples
Result: ERROR
Running examples in ‘uwIntroStats-Ex.R’ failed
The error most likely occurred in:
> ### Name: regress
> ### Title: General Regression for an Arbitrary Functional
> ### Aliases: regress fitted.uRegress print.augCoefficients print.uRegress
> ### uLRtest uWaldtest termTraverse explode indentNames getLevels testList
> ### pasteTwo processTerm addArgs pasteOn pasteOnSpline pastePair
> ### movingSum myNext reFormatReg createCols checkNesting splitOnParen
> ### reFormat equal
> ### Keywords: ~kwd1 ~kwd2
>
> ### ** Examples
>
> # Loading required libraries
> library(survival)
> library(sandwich)
>
> # Reading in a dataset
> mri <- read.table("http://www.emersonstatistics.com/datasets/mri.txt",header=TRUE)
>
> # Creating a Surv object to reflect time to death
> mri$ttodth <- Surv(mri$obstime,mri$death)
>
> # Attaching the mri dataset
> attach(mri)
>
> # Linear regression of atrophy on age
> regress("mean", atrophy~age, data=mri)
Call:
regress(fnctl = "mean", formula = atrophy ~ age, data = mri)
Residuals:
Min 1Q Median 3Q Max
-36.870 -8.589 -0.870 7.666 51.203
Coefficients:
Estimate Naive SE Robust SE 95%L 95%H
[1] Intercept -16.06 6.256 6.701 -29.22 -2.907
[2] age 0.6980 0.08368 0.09002 0.5213 0.8747
F stat df Pr(>F)
[1] Intercept 5.75 1 0.0168
[2] age 60.12 1 < 0.00005
Residual standard error: 12.36 on 733 degrees of freedom
Multiple R-squared: 0.08669, Adjusted R-squared: 0.08545
F-statistic: 60.12 on 1 and 733 DF, p-value: 2.988e-14
>
> ## Linear regression of atrophy on male and race and their interaction,
> ## with a multiple-partial F-test on the race-age interaction
> regress("mean", atrophy~ male + U(ra=~race*age), data=mri)
Call:
regress(fnctl = "mean", formula = atrophy ~ male + U(ra = ~race *
age), data = mri)
Residuals:
Min 1Q Median 3Q Max
-33.438 -8.368 -0.462 7.372 53.253
Coefficients:
Estimate Naive SE Robust SE 95%L 95%H
[1] Intercept 2.199 13.24 14.53 -26.33 30.73
[2] male 6.003 0.8850 0.8815 4.273 7.734
ra
[3] race -15.30 8.902 9.660 -34.26 3.664
[4] age 0.4255 0.1770 0.1943 0.04399 0.8070
[5] race:age 0.1954 0.1186 0.1287 -0.05726 0.4481
F stat df Pr(>F)
[1] Intercept 0.02 1 0.8798
[2] male 46.37 1 < 0.00005
ra 21.51 3 < 0.00005
[3] race 2.51 1 0.1137
[4] age 4.79 1 0.0289
[5] race:age 2.31 1 0.1293
Residual standard error: 11.99 on 730 degrees of freedom
Multiple R-squared: 0.1443, Adjusted R-squared: 0.1397
F-statistic: 27.23 on 4 and 730 DF, p-value: < 2.2e-16
>
> ## Linear regression of atrophy on age, male, race (as a dummy variable), chf,
> ## and diabetes. There are two multiple partial F-tests and both are named
> regress("mean", atrophy~age+male+U(rc=~dummy(race)+chf)+U(md=~male+diabetes), data=mri)
Call:
regress(fnctl = "mean", formula = atrophy ~ age + male + U(rc = ~dummy(race) +
chf) + U(md = ~male + diabetes), data = mri)
Residuals:
Min 1Q Median 3Q Max
-34.003 -8.611 -0.572 7.279 54.064
Coefficients:
Estimate Naive SE Robust SE 95%L 95%H
[1] Intercept -17.95 6.088 6.593 -30.90 -5.009
[2] age 0.6862 0.08142 0.08840 0.5127 0.8598
[3] male 5.879 0.8952 0.8942 4.123 7.635
rc
dummy(race)
[4] race.2 -2.147 1.285 1.255 -4.611 0.3176
[5] race.3 0.1829 1.826 1.796 -3.343 3.709
[6] race.4 -2.734 3.508 3.798 -10.19 4.722
[7] chf 1.919 1.943 2.179 -2.358 6.197
md
male 5.879 0.8952 0.8942 4.123 7.635
[8] diabetes 0.6524 1.450 1.267 -1.836 3.141
F stat df Pr(>F)
[1] Intercept 7.41 1 0.0066
[2] age 60.25 1 < 0.00005
[3] male 43.23 1 < 0.00005
rc 1.09 4 0.3598
dummy(race) 1.14 3 0.3336
[4] race.2 2.92 1 0.0877
[5] race.3 0.01 1 0.9189
[6] race.4 0.52 1 0.4718
[7] chf 0.78 1 0.3787
md 22.84 2 < 0.00005
male 43.23 1 < 0.00005
[8] diabetes 0.26 1 0.6069
Dummy terms calculated from race, reference = 1
Residual standard error: 12 on 727 degrees of freedom
Multiple R-squared: 0.1453, Adjusted R-squared: 0.1371
F-statistic: 15.31 on 7 and 727 DF, p-value: < 2.2e-16
>
> ## Proportional hazards regression clustered on id
> ## (here it makes no difference because the ids are unique)
> regress("hazard", ttodth~ldl, id=ptid, data=mri)
Warning in coxph(formula, data = data, ...) :
a variable appears on both the left and right sides of the formula
Error in eval(predvars, data, env) :
invalid 'envir' argument of type 'closure'
Calls: regress ... eval -> eval -> <Anonymous> -> model.frame.default -> eval
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-solaris-x86, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64
Version: 0.0.5
Check: re-building of vignette outputs
Result: WARN
Error in re-building vignettes:
...
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Quitting from lines 92-93 (regress_intro.Rmd)
Error: processing vignette 'regress_intro.Rmd' failed with diagnostics:
object 'ttodth' not found
Execution halted
Flavors: r-patched-solaris-x86, r-release-osx-x86_64