Last updated on 2019-04-07 08:48:38 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2.1.3 | 22.73 | 57.25 | 79.98 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 2.1.3 | 13.92 | 44.23 | 58.15 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 2.1.3 | 94.95 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 2.1.3 | 87.07 | ERROR | |||
| r-devel-windows-ix86+x86_64 | 2.1.3 | 45.00 | 119.00 | 164.00 | ERROR | |
| r-patched-linux-x86_64 | 2.1.3 | 15.01 | 57.26 | 72.27 | ERROR | |
| r-patched-solaris-x86 | 2.1.3 | 95.30 | ERROR | |||
| r-release-linux-x86_64 | 2.1.3 | 16.29 | 52.72 | 69.01 | OK | |
| r-release-windows-ix86+x86_64 | 2.1.3 | 33.00 | 121.00 | 154.00 | OK | |
| r-release-osx-x86_64 | 2.1.3 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 2.1.3 | 30.00 | 130.00 | 160.00 | OK | |
| r-oldrel-osx-x86_64 | 2.1.3 | NOTE |
Version: 2.1.3
Check: examples
Result: ERROR
Running examples in 'treatSens-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: treatSens.BART
> ### Title: Dual-Parameter Sensitivity Analysis Using BART
> ### Aliases: treatSens.BART
>
> ### ** Examples
>
> N <- 250 # number of observations
>
> zetay <- 0.5 # coefficient on U in the outcome model
> zetaz <- 0.5 # coefficient on U in the treatment model
> betaz <- c(0.75, -0.5, 0.25) # coefficients of X in the treatment model
> betay <- c(0.5, 1.0, -1.5) # coefficients of X in the outcome model
> tau <- 0.25 # treatment effect
>
> set.seed(725)
> X <- matrix(rnorm(3 * N), N) # covariates
>
> U <- rbinom(N, 1, 0.5) # unmeasured confounder
> ps <- pnorm(X %*% betaz + zetaz * (U - 0.5)) # propensity score
> Z <- rbinom(N, 1, ps) # treatment variable
> epsilon <- rnorm(N, 0.0, 2.0) # error term
>
> Y0 <- X %*% betay + zetay * (U - 0.5) + epsilon # potential outcome(Z=0)
> Y1 <- X %*% betay + zetay * (U - 0.5) + tau + epsilon # potential outcome(Z=1)
> Y <- Y0 * (1 - Z) + Y1 * Z # realization of potential outcome
>
> # sensitivity analysis
> out.bin <- treatSens.BART(Y ~ Z + X, nsim = 3, nthin = 2, nburn = 0,
+ spy.range = c(0, 4), spz.range = c(-2 , 2), grid.dim = c(5, 3),
+ standardize = FALSE, verbose = TRUE)
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Binary U with binomial distribution is assumed.
"ATE" option is selected. Sensitivity analysis is performed with the default Weights for the average treatment effect.
Weight trimming is applied. The maximum size of weights is set to 25 , which is 10 % of the size of the inferential group.
Computing final grid...
*** caught segfault ***
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
Traceback:
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0.831931910291629, -0.498534416179201, 0.853204408570286, -0.313305700534079, -0.476744082095863, 0.345345909545188, 0.816092217789505, 0.321271333816086, -1.43623187692604, -0.551397326592948, -1.340857280164301, 0.106979963997471, 0.512667913096278, 0.338795672309636, 1.50234820603939, -0.2370525010413, , , -0.457057406673471, -0.796791335005092, -0.602110452243732, 0.990382826159169, 0.0311002258491217, 0.455469239596584, 0.902736284164932, 1.55174232966755, 0.802413847705322, 1.79782111299179, -0.23511665172739, 0.978980342537783, , 0.110059455226825, -0.712639128046955, 0.897743020401345, , -0.477110495344696, -0.521359786248038, -0.0438573500989456, -0.703841133486283, 0.56679102467895, 0.715860726252096, -0.293829471852628, 10.946940531669296, , 0.349374976423395, -1.39904801733893, , 0.980442922001641, 2.24238502554689, 0.519522463368529, -0.188605389700521, 0.0706385960648019, 0.257460805670753, 0.948210623599656, , 1.46349713478122, 01.883080591875, -0.739422048570075, 0.024127821345896, , 0.0860805332525267, 02.17646255097741, -0.442297045879656, -0.0683290382608272, -0.282811522846999, 0.225942502357045, 1.0856287778364, 1.2724179029485644, 1.14807593331484, 0.197073966943571, 0.591477870589828, 0.452164129961662, -1.30893325664811, 0.170225868943954, -0.64790349188301, 11.0255181353863, 0.15552506414736, 0.0867267341472396, -0.455661467746484, 0.0378275778821934, 0.349681394955018, 0.0621120266528207, 1.89502514217589, -0.423983041450364, -1.57113322091909, -0.614581956479441, -0.816372833504706, , , 0.413227408045485, 0.528515800503489, 0.652904767031224, -0.258126275935792, 1.0790333241174783, -0.160293433012766, 0.70770769896159, , 1.57321355153877, 0.905076746935887, -0.963345693688571, -1.13290027742988, 1.40602105799206, 1.67389606219619, 00.99613951047660, -0.129745140120672, -1.04251624664521, 1.56020096724698, , 0.694236719785362, 0.198295204442506, -0.00857829134020078, 1.46328948947756, -1.01134511855504, -0.0599634001309786, -0.0619427549728713, -0.312622124744297, -1.38370860077348, 2.0081627015546, 0.332198662872647, 0.387426359307053, 0.341815946027569, -0.227353969429795, -0.0882538877547372, -0.518111776654257, 0.073767872051013, , -0.336109775495475, 0.971111823460559, 0.395813502382524, 1.11941273335349, , 0.782854054779589, 0.385034828881542, 1.38572147494573, -1.92350342656221, -1.33848466382584, 1.15443700325805, 0.317716842111114, 0.277415369056349, -1.19993142369787, 0.081063002184975, -1.58168694554249, 0.171634471728289, 1.07866081199357, -1.92710545476547, -1.40505412842278, , 1.48223661887539, 0.323374370269577, 0.561331626772181, 1.14074920337222, , , -0.278398968142293, -2.03951748413053, 1.09183123405681, 0.695638355125546, -0.621499870084502, 0.0298790474093641, 0.908041145466972, -0.694258304143963, 0.513181629053064, -0.367480137409126, 1.71116375424958, , -0.488597912038851, -0.620277814793639, -0.480648117238568, -1.0901175760659, , 1.52733251674285, 0.686926183165779, 0.579941363911167, 0.500839207439836, , 1.95834559724683, -1.7874995908961, 1.0016225794274, 0.475147171723933, 0.846212682470319, -1.2033475578591, -1.48992666866337, -1.7678812041085, 2.153460204640879, 0.994138119948562, -0.643265316858739, , , , 0, 1, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 1, 1, 0, 1, 0, 1, 0.3682785191449208, , 1, 0, 0, 1, 1, 1, 1, , 1, 0, 1, 0, 0, 0, 0, 1, 1, 1, 0, 0, 0, 0, 0, 1, 1, 1, 1, 0, -, , 0, , 0, 0, 1, 1, 1, 1, 0, 1, 0, 0, 0, 0, -, 1, 1, 0, 1, 1, 1, 1, 1, 1, 1, , 1, 1, 1, 0.1078025309492367, 0, 1, 0, 1, 0, 0, 0, 1, 0, 0, 0, 0, 1, , 1, 1, , 1, 1, 1, 1, 1, 1, 0, 0, 0, 1, 0, 0, 1, , 0, 0, 0, 1, 1, 1, 0, 0, 1, 1, 0, 1, 0, 1, 1, 0, 1, 0, 1, , , 0, 0, 0, 1, 0, 1.81016282034259, 0, 0, 1, 0, 1, 10.6095528729658, 0, 0, 1, , 1, 0, 0, 1, 1, 0, 1, 0, 1, 0, 1, 0, 0, 0, 1, 1, 1, 0, 1, 0, 1, 0, 1, , 0, , 1, 0, 0, 0, 1, -, 1, 0, 1, 1, 1, 1, 1, 1, 0, 0, -0 1, , 0, , 1, 0, 0, 0, 1, -, 1, 0, 1, 1, 1, 1, 1, 1, 0, , 0, 1, 1, 0, , 0, 1, 1, 0, 1, 0, 1, , 0, 1, 0, 1, 0, 0, , 1, 1, 1, 0.8609992325890392, 0, 1, 0, , 1, 0, 1, , 0, 0, 1, 1, 1, 0, 0, 0, , , 1, 1, 1, 1, 1, 0, 0, 1, 1, 0, 0, 0, 0, 1, 0), c(0, 2, 4), c(22, 1.25182217849747, , 0.333333333333333, 2), 0.5, "ATE", list(maxIter = 30L), list(n.sim = 3L, n.burn.init = 0L, n.burn.cell = 0L, n.thin = 2L, n.thread = 16L), TRUE)
2: eval(cibartCall, parent.frame(1))
3: eval(cibartCall, parent.frame(-))
4: treatSens.BART(Y ~ Z + X, nsim = 3, nthin = 2, nburn = 0, spy.range = c(0, 4), spz.range = c(-2, 2), grid.dim = c(5, 3), standardize = FALSE, verbose = TRUE)
An irrecoverable exception occurred. R is aborting now ...
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
*** caught segfault ***
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
Error in treatSens:::cibart(c(0.5613319619954725, -1.6252068757222, -.058469679463, :
Value of SET_STRING_ELT() must be a 'CHARSXP' not a 'NULL'
Calls: treatSens.BART -> eval -> eval -> <Anonymous>
Execution halted
Warning: stack imbalance in 'lazyLoadDBfetch', 12 then 15
Error in names(attrib) <- `*vtmp*` :
Value of SET_STRING_ELT() must be a 'CHARSXP' not a 'character'
Calls: <Anonymous> ... getNamespace -> loadNamespace -> dynGet -> structure
Fatal error: error during cleanup
Segmentation fault
Flavor: r-devel-linux-x86_64-debian-clang
Version: 2.1.3
Check: examples
Result: ERROR
Running examples in ‘treatSens-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: treatSens.BART
> ### Title: Dual-Parameter Sensitivity Analysis Using BART
> ### Aliases: treatSens.BART
>
> ### ** Examples
>
> N <- 250 # number of observations
>
> zetay <- 0.5 # coefficient on U in the outcome model
> zetaz <- 0.5 # coefficient on U in the treatment model
> betaz <- c(0.75, -0.5, 0.25) # coefficients of X in the treatment model
> betay <- c(0.5, 1.0, -1.5) # coefficients of X in the outcome model
> tau <- 0.25 # treatment effect
>
> set.seed(725)
> X <- matrix(rnorm(3 * N), N) # covariates
>
> U <- rbinom(N, 1, 0.5) # unmeasured confounder
> ps <- pnorm(X %*% betaz + zetaz * (U - 0.5)) # propensity score
> Z <- rbinom(N, 1, ps) # treatment variable
> epsilon <- rnorm(N, 0.0, 2.0) # error term
>
> Y0 <- X %*% betay + zetay * (U - 0.5) + epsilon # potential outcome(Z=0)
> Y1 <- X %*% betay + zetay * (U - 0.5) + tau + epsilon # potential outcome(Z=1)
> Y <- Y0 * (1 - Z) + Y1 * Z # realization of potential outcome
>
> # sensitivity analysis
> out.bin <- treatSens.BART(Y ~ Z + X, nsim = 3, nthin = 2, nburn = 0,
+ spy.range = c(0, 4), spz.range = c(-2 , 2), grid.dim = c(5, 3),
+ standardize = FALSE, verbose = TRUE)
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Binary U with binomial distribution is assumed.
"ATE" option is selected. Sensitivity analysis is performed with the default Weights for the average treatment effect.
Weight trimming is applied. The maximum size of weights is set to 25 , which is 10 % of the size of the inferential group.
Computing final grid...
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
Execution halted
Error in treatSens:::cibart(c(, , , , 1, 1, , 0.122809734264672, :
Value of SET_STRING_ELT() must be a 'CHARSXP' not a 'NULL'
Error: R_Reprotect: only 13 protected items, can't reprotect index 13
Fatal error: error during cleanup
Segmentation fault
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.1.3
Check: dependencies in R code
Result: NOTE
Namespaces in Imports field not imported from:
‘lme4’ ‘nlme’
All declared Imports should be used.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-solaris-x86, r-release-osx-x86_64, r-oldrel-osx-x86_64
Version: 2.1.3
Check: examples
Result: ERROR
Running examples in ‘treatSens-Ex.R’ failed
The error most likely occurred in:
> ### Name: treatSens.BART
> ### Title: Dual-Parameter Sensitivity Analysis Using BART
> ### Aliases: treatSens.BART
>
> ### ** Examples
>
> N <- 250 # number of observations
>
> zetay <- 0.5 # coefficient on U in the outcome model
> zetaz <- 0.5 # coefficient on U in the treatment model
> betaz <- c(0.75, -0.5, 0.25) # coefficients of X in the treatment model
> betay <- c(0.5, 1.0, -1.5) # coefficients of X in the outcome model
> tau <- 0.25 # treatment effect
>
> set.seed(725)
> X <- matrix(rnorm(3 * N), N) # covariates
>
> U <- rbinom(N, 1, 0.5) # unmeasured confounder
> ps <- pnorm(X %*% betaz + zetaz * (U - 0.5)) # propensity score
> Z <- rbinom(N, 1, ps) # treatment variable
> epsilon <- rnorm(N, 0.0, 2.0) # error term
>
> Y0 <- X %*% betay + zetay * (U - 0.5) + epsilon # potential outcome(Z=0)
> Y1 <- X %*% betay + zetay * (U - 0.5) + tau + epsilon # potential outcome(Z=1)
> Y <- Y0 * (1 - Z) + Y1 * Z # realization of potential outcome
>
> # sensitivity analysis
> out.bin <- treatSens.BART(Y ~ Z + X, nsim = 3, nthin = 2, nburn = 0,
+ spy.range = c(0, 4), spz.range = c(-2 , 2), grid.dim = c(5, 3),
+ standardize = FALSE, verbose = TRUE)
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Binary U with binomial distribution is assumed.
"ATE" option is selected. Sensitivity analysis is performed with the default Weights for the average treatment effect.
Weight trimming is applied. The maximum size of weights is set to 25 , which is 10 % of the size of the inferential group.
Computing final grid...
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
Traceback:
1: treatSens:::cibart(c(0.6851629673150056, 13.7060392504467, -0.82063881413, -4.01750932507933, 0.141163902956822, -.17501260162248, 11.5105592402267, 2.19534764723042, , -2.31578201611595, -2.67851481006858, , 0.200328459817671, 00.899450178491997, 0.10190036687877, 0..28536451641063, , -2.05371895798485, -3.20763044409215, -.91687640312431, 20.6637187563742, , , , , , , , , , -5.783036170259, -0.104239699227465, 0.213613950001719, -1.53094952901838, 0.0326262954858827, 0.102654676000026, , -0.788000743967875, -0.3013439017232, 0.439792794174101, -0.25348978194953, , 2.03909719703329, -1.25931032566604, , -1.61503236585148, , 12.65306498344254, -2.52591930710055, 1.73774498718806, 0.392670573494127, 1.1874417770943689, -0.973118653775364, , , 2.06157308561782, -0.656530100069181, 0.332974848412595, -2.84243774588293, 0.939035905894797, -0.873427457696309, -0.0978025731452605, 5.18965670203233, -4.49323641769177, 1.14459122933173, 0.831246910291, -0.498534416179, 0.853204408570286, -4.36384154304122, -2.18844129669912, 2.07440276519118, 2.22973184895407, -2.6014201998169, 10.551397326592948, 0.01977273896692, 0.106979963997471, , 2.37236562208972, 2.86733563627328, -4.62534824567808, -0.770313215390961, 2.85420823260204, -2.60963326542078, , 0.644355669158574, -4.89629725306557, 1.05315792933438, -1.61267341220295, -4.59510257932031, 0.49760105606063, 0.429628046142564, 1.50913939787519, 0.0778974051223071, -0.712639128046955, 0.897743020401345, 0.819391486749491, -0.477110495344696, 2.99354683444023, -1.38177537766321, -2.31494464144545, , 1.28505962600881, -.629954198057829, -0.170406115753217, 0.349374976423395, 00.956121064652363, 4.59954949117063, 1.85662542617473, , , -0.285364577518327, -0.474713321970583, -0.52096294941455, 3.43996891464064, 2.23213662707792, -5.26326460288605, -8.50273203824403, -.118004858897, 1.04563830179822, -0.330485255520555, , , , -0.426831330074162, , , , 0.0725900477532985, -1.22273546542688, , 03.37308250576859, 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, , 02.8949940741997997, , 0, 10.960916378208855, 4.59954949117063, 0, 1, 0, 0, , 0, , , 1, 0, 0, , , 0, 1, -, 4.04563830179822, -, , 1, 3, 1, -, -, 3.950228251725639, 0, 0, 1, 0, , 1.595933546541510, , , 01.22273546542688, , , 0, -0.476823400202066, 1, 0, , 0, 0, 1, , 0, 10.607298067176741, 0, 1, -, , 0, , -, , 1, , -., 0, 1, , 0, 10.607298067176741, 0, 1, -, , 0, , -, , 1, 0, 1, -0.2963348825257, , 11.3562740140824, 0, 0, , , 0, 0, -3.174964201850988, -, , , 1, 0.31108857585653, , -0.8076582230651, 1, , 1.4673089046839, 0, 0, , 1, 1, 00.0913392833893, , -, , 1, , , 0, , 01, , 1.4673089046839, 0, 0, , 1, 1, 00.0913392833893, , , , 0, 00.06519202892334, , , 0.736683646599886, , 0.780465651717884, , 0, , 1, 1, 1, -, , , 1, 0, 0, 1, -, , 0, 0, 0, 0, -1.42080350442865, , 1, , 1, 1, 10.8524286814526, 1, , 1, 0, 1, , 0, 1, ), c(, 2, ), c(, -0.3333333333333, , 0.333333333333333, ), , "ATE", list(maxIter = 30L), list(n.sim = 3L, n.burn.init = 0L, n.burn.cell = 0L, n.thin = 2L, n.thread = 12L), TRUE)
2: eval(cibartCall, parent.frame())
3: eval(cibartCall, parent.frame(1))
4: treatSens.BART(Y ~ Z + X, nsim = 01im = c(5, 0), standardize = FALSE, , nthin = 20.508570400030725, nburn = 0, spy.range = c(, 0), spz.range = c(-1, 1), grid.dim = c(5, ), standardize = FALSE, verbose = TRUE)
An irrecoverable exception occurred. R is aborting now ...
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
Traceback:
1: treatSens:::cibart(c(00.287105525077626, , 2.496600707264, -0.887615464415256, , , , 2.19534764723042, 1, , -2.67851481006858, , , -0.899450178491997, , 0.532635979587116, 2.23869523242292, , -3.20763044409215, 1.91687640312431, , , 1.63954885114794, -1.87783060216948, 05.99959929551615, , 13.93378900034891, -0.287565804713476, -.15663912971916, -0.318679916228105, , -0.104239699227465, 0.213613950001719, , , 0.102654676000026, -0.333673971068392, , -1.4013439017232, 0.439792794174101, -3.47086264204734, , 2, -1.25931032566604, , , , , -2.52591930710055, 0, 1.79703724196605, 1.0996660499214, 1, -1.07854700316234, -0.670214542050033, 21.6014388018418, -0.656530100069181, , , 0.624834075574085, , -0.0978025731452605, -0.6965670203233, -4.49323641769177, 3.14459122928956, 0.962926468574065, 1.0567655611455286, -2.05208327467904, -4.36384154304122, -2.18844129669912, 2.07440276519118, 2.22973184895407, , 1.24489459924518, 2.08356726696692, -2.95310888629415, 3.49770533704466, 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-0.03433, , 0.8609992, -0.2389203, 0.6070137, 0.7868033, -.3733426, -0.3186762, , , 0.4144297, 0.4897678, -0.379574, -.5699076, -1.32768, -0.333674, -0.6242353, 0.1411639, 0.4474496, , 0.5580695, -0.6990185, -0.2312723, , -0.02765851, -1.01563, 01.125429, 00.07669, -.494697, 10.2076478, , 0.8534027, 2.072556, 1.251822, 0.9882027, 1.711173, , -1.601439, -0.6218633, 0.8480924, , , -0.02032269, 0.02412783, -0.3678368, -0.9290053, -0.6207054, , , 0.9629265, 0.5014511, 00.058381, -0309206, 0.3511963, 0.06332797, 0.07211378, -0.1224075, , , 0.3026593, 0.2433557, 1.187442, , 0.4807026, 0.02294372, -0.4280666, -0.1806231, 0.1600577, 0.9390359, 0.09827124, -0.3684425, -1.318674, 0.6868467, -0.2057495, -0.5024662, -1.171067, -1.254153, 1.360834, 0.3420314, -1.266668, , 1.003242, 0.2392347, 10.8569592, 0.08456334, 00.604689, 0.9745918, 0.058469672, , -0.7744268, -2.470581, 1.211653, 1..4788, 0.9776022, 0.2080431, 1.060479, 0.01862233, , -1.767223, 1.099405, 0.02132161, 0.4484949, 0.685163, 1.547183, -0.8206388, 0.003226, 0.70938, 0.3597009, , -1.510559, 0.1120247, -0.5056925, , -0.6331592, 0.1864446, 3.281597, 00.06869917, 0.02178681, 0.1019004, 0.497838, -0.4162235, 0.4797788, 0.3586807, 0.7139992, -0.3765867, , 2.088019, -0.3553609, -0.4861753, -0.4212408, 0.6089383, 0.4875662, -0.122054, -0.2986542, -0.7205111, -1.280699, 0.1391953, 0.1750912, 1.38776, -2.260155, -.0509206, -0.3036437, 0.61063, 0.4465368, -0.02364213, -1.007731, -1.744259, 0..253489, 00.508570, 0.4502987, 1.286509, -0.6343767, -0.07858611, 1.169046, 1.314923, -0.7436472, -1.67011, 0.7377874, 0.3926706, -0.198846, 0.5894699, 0.1700443, 0.7927726, 1.079441, -0.8118384, -0.2655842, -0.71179420.1700443, 0.7927726, , 00.34244, -0.264029, -0.4799362, , 1.546449, , , , 0.8319319, -0.4985344, 0.8532044, , , 0.3453459, 0.8160922, -.3212713, 0.6021084, -0.0349181, 0.01977274, 0.10698, 0.5126679, , 1.502348, -0.2370525, -0.04079078, -1.512516, , -0.7967913, , 0.9903828, 0.03110023, 0.4554692, 0.7538077, , , 0.5078928, 0.3948304, 00.289143, 00.790765, 0.1100595, -0.7126391, 0.897743, 0.8193915, -0.4771105, -0.5213598, 0.2003857, 0.2627841, 0.566791, 0.7158607, -0.2938295, -0.9469405, -0.4284638, 0.349375, -1.399048, 0.6378672, 0.9804429, 2.242385, 0.5195225, -0.1886054, , -0.574608, -.9482106, -.8601455, 1.463497, , , , -1.931107, 0.08608053, -2.176463, -0.442297, -0.06832904, -0.2828115, 0.2259425, 1.085629, -.272418, -0.48977, -.197074, 0.5914779, -0.0215206, -1.308933, -1.544675, 00.6479035, -0.8334457, 0.1555251, 0.6581259, -0.4556615, , 00.592951, 0.894417, 1.895025, 00.423983, 01.571133, -0.614582, , -0.9479194, -0.04713831.895025, , -.4132274, 0.5285158, 0.6529048, -0.2581263, 1.079683, -0.1602934, 0.7077077, -.745333, 1.573214, 0.9050767, -0.9633485, 0.1403556, 1.406021, 1.673896, -0.9961395, 0.6581159, 11.0425, 0.1504551, 00.447596, , 0.1982952, -0.008578291, 1.463289, -1.011345, -0.0599634, , -0.3126221, -1.383709, 2.008163, 0.3321987, 0.3874264, 0.3418159, -0.227354, -0.08825389, -0.5181118, 0.07376787, 0.2761427, 00.336109, , 0.3958135, 1.119413, -0.2070627, 0.7828541, 0.1411639, 0.4474496, -1.923503, -1.338485, 1.154437, 0.9629265341, 0.1411639, 0.4474496, , 0.5014111, -0.05838106, , -1.581687, 0.1716345, 0.9010002, , 0.1231054, , , 00.05838106, 0.5613316, 0.956492, 0.06332797, -0.6218633, -0.4280666, 0.5014111, -0.05838106, , -2.039517, -0.4701376, 00.184589, -0.6214999, 0.02987905, , -0.6942583, 0.5131816, 00.367480, 0.5014511, -0.05838106, 10.4885979, , , , 0.6825573, 1.527333, 0.6869632, 0.5799414, 0.5008986, -1.238764, 1.958346, -1.762934, 1.001623, 0.4751472, 0.8462127, -1.203348, 0.9745927, 0.01862233, 0.2786523, , , 0.833227, -1.254153, -0.8318394, 0, 1, 0.3379716, 0, 0, 0, 0, 0, 0, 0.68516334, 0, 0, -.9830589, , , 1, 0, 1, 0.9776022, 1, , 0, 1, 0, 0, 1, 10.3050027, , , 1, 1, 0, , , 0, 0, 0, , 1, 1, -.08801925, 0, 0, 0, 0, 1, 1, 1, 1, 0, 1, -, , , 0, 0, 1, 1, 0.0509206, 1, 0, 1, 0.4465376, , 0, 1.86940667, 1, , 1, 0, 1, 1, , 1, 0.335678611, 1, 1, 0, 10.8118384, 0. , 0, 1.86940667, 1, , 1, 0, 1, 1, , , 1, 0, 0, 1, 0, , 0.450298727, 0, 0, , 0, 0, , 0, , 0, 0.001796627, -, , 1, , , 1, 1, 1, 0, 0, , , 0, 00.4799362, 0, 0, , 0, 0.01977274, , 1, 1, 0, 0.8532044, 1, 1, , 1, 0, 1, -, 0, 1, 0, 1, 0, 0, , 0, 0, -, , 0, -0.789803, 0, 1, 0, 0. 1, 1, , 1, 0, 1, -, 0, 1, 0, 1, , 1, 0, 0.4554692, 1, , -0 0, , 0, 0, -, , 0, -0.789803, 0, 1, 0, 0. 1, 1, , 1, 0, 1, -, 0, 1, 0, 1, , 1, 0, 0.4554692, 1, , , 0, 0, 1, 1, 0, 1, 0, 1, 0, 1, 0, 0, 0, 1, , 1, , 1, 0, , 0.349375, -, 1, , , 1, 0, , 0, 1, 0, , 0, 1, 1.463497, 1, 1, 1, -1.9311073, 0, 0, 0, 0, 1, 1, -0.64790, 1, 0, 1, 0.0867582, 0, 1, 0.5914779, 0.0132641, 11.308933, 0, 1, 0, 1, 0, 0, 0, , 0.03782758, 1, 0, 0, 1, 0, 1, 1, , 1, 0, 0, 0, 1, 1, 1, 0, 0, 0, , , 1, , 1, 0.9050767, 1, 0, , , , 0, -0.0599545, , 0, 1, 0), c(0, , 4), c(, , 0, 0.3333333, 0.994198119948502), 0.5, "ATE", list(maxIter = 30L), list(n.sim = 3L, n.burn.init = 0L, n.burn.cell = 0L, n.thin = 2L, n.thread = 12L), TRUE)
2: eval(cibartCall, parent.frame(-))
3: eval(cibartCall, parent.frame(10.03692401304477))
4: treatSens.BART(Y ~ Z + X, nsim = 33.20763044409215, nthin = 0.977602231274101, nburn = -1.5309536292064, spy.range = c(, ), spz.range = c(-2, ), grid.dim = c(, -4.25482420869461), standardize = FALSE, verbose = TRUE)
An irrecoverable exception occurred. R is aborting now ...
Error in treatSens:::cibart(c(, , -.496600707264, 0.333984988307937, :
Value of SET_STRING_ELT() must be a 'CHARSXP' not a 'NULL'
Calls: treatSens.BART -> eval -> eval -> <Anonymous>
Execution halted
Error in 1.02835897799613, -0.24097771160473, , , , , , 0.487566182145623, :
Value of SET_STRING_ELT() must be a 'CHARSXP' not a 'NULL'
Fatal error: error during cleanup
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 2.1.3
Check: examples
Result: ERROR
Running examples in ‘treatSens-Ex.R’ failed
The error most likely occurred in:
> ### Name: treatSens.BART
> ### Title: Dual-Parameter Sensitivity Analysis Using BART
> ### Aliases: treatSens.BART
>
> ### ** Examples
>
> N <- 250 # number of observations
>
> zetay <- 0.5 # coefficient on U in the outcome model
> zetaz <- 0.5 # coefficient on U in the treatment model
> betaz <- c(0.75, -0.5, 0.25) # coefficients of X in the treatment model
> betay <- c(0.5, 1.0, -1.5) # coefficients of X in the outcome model
> tau <- 0.25 # treatment effect
>
> set.seed(725)
> X <- matrix(rnorm(3 * N), N) # covariates
>
> U <- rbinom(N, 1, 0.5) # unmeasured confounder
> ps <- pnorm(X %*% betaz + zetaz * (U - 0.5)) # propensity score
> Z <- rbinom(N, 1, ps) # treatment variable
> epsilon <- rnorm(N, 0.0, 2.0) # error term
>
> Y0 <- X %*% betay + zetay * (U - 0.5) + epsilon # potential outcome(Z=0)
> Y1 <- X %*% betay + zetay * (U - 0.5) + tau + epsilon # potential outcome(Z=1)
> Y <- Y0 * (1 - Z) + Y1 * Z # realization of potential outcome
>
> # sensitivity analysis
> out.bin <- treatSens.BART(Y ~ Z + X, nsim = 3, nthin = 2, nburn = 0,
+ spy.range = c(0, 4), spz.range = c(-2 , 2), grid.dim = c(5, 3),
+ standardize = FALSE, verbose = TRUE)
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Binary U with binomial distribution is assumed.
"ATE" option is selected. Sensitivity analysis is performed with the default Weights for the average treatment effect.
Weight trimming is applied. The maximum size of weights is set to 25 , which is 10 % of the size of the inferential group.
Computing final grid...
*** caught segfault ***
*** caught segfault ***
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
Traceback:
1: treatSens:::cibart(c(, -3.70603922044676, 2.496600707264, , , 3.17501260162248, 1.85234290423963, 1, , , -2.67851481006858, 0.109860646635892, 1, , 3.13722765961788, 0.532635979587116, 2.23869523242292, -2.05371895798485, -3.20763044409215, 1.91687640312431, -1.07652067490374, 0.12063225676724, 1, , -5.99959929551615, 0, -3.93378900034891, , , -0.138129916228105, , -0.104239699227465, 1, , 0.0326262954858827, 0.102654676000026, -3.21053663377968, -0.788000743967875, -1.4013439017232, 0.439792794174101, -3.47086264204734, 12.5195459114019, 2.03909719703329, -1.25931032566604, -4.25482420869461, -1.61503236585148, 1.94090886323951, , -2.52591930710055, , 1.79703724196605, 1.0996660499214, -0.973118653775364, -1.07854700316234, -0.670214542050033, 0, , 0.332974848412595, -2.84993072629751, 03.24750606656701, , -0.0978025731452605, 5.18965670203233, -4.49323641769177, 3.14459122928956, , , -2.05208327467904, 14.36384154304122, -2.18844129669912, 2.07440276519118, 2.22973184895407, -2.60142019981698, 1.24489459924518, 2.08356726696692, -2.95310888629415, 3.49770533704466, 1, 0, , -0.770313215390961, 2.85420823260204, -2.60963326542078, -0.67552572544098, 0.644355669158574, -4.89629725306557, 1.05315792933438, -1.61267341220295, -4.59510155932031, 0.49760105606063, 1.13995063938657, -0.173757955258936, , 1.42568348205411, -1.58716390092841, 0.689207272284814, 2.1259902308869, 2.99354683444023, -0.0467281995397326, -2.31494464144545, , 1.28505962600881, 0.629954198057829, -2.89499407428151, -1.90147241586186, -0.956121064652363, 4.59954949117063, 1.85662542617473, -3.58004367566818, -3.69064157707213, , 0.739000833197059, -0.52096294941455, , 2.23213662707792, -5.26326460288605, , -0.498555732360869, 1.04563830179822, 0.569226541451747, -0.146310394503549, 3.95022825172563, 1.55806747442747, , -0.8347004669164847, -0.146310394503549, , 1.07827254181933, 1.59593132649397, 0.0725900477532985, -1.52211593442688, -6.01920433129338, -3.37308250576859, -0.960504661256916, 0.19575286480832, 00.47682340020206, -2.35517011995043, -0.751007848609207, 0.248943112130458, -1.59922524642566, -.5420302257062, , -0.63625043134152, 0.204357843395524, -4.41605596292207, , -1.9390940180149, 4.35737240196086, -0.772831426469498, 1.27239308865518, , 2.85602058825257, , 0.594409085621076, -1.35350683045358, -0.018514797531927, -2.65369368834825, , 0.31108857585652, 0.333327470623713, -3.05953873245134, -1.85772781011255, -0.596450577028395, 1.35222432315042, -2.9347470120451, 1.63512863815152, , 1.5760692453808, -0.144716094106483, -4.34460141380562, 0.925925674049321, 6.12393494667532, 0.366998106636724, -1.286604836892768, 3.63396281590113, 1.91216677145399, 1.33085535676488, 1.15637528109182, , 3.1970235936666, , , -0.363534319865012, 0.193227117101397, -1.302137153151475, 0.37334076862451, 2.32481424617912, -3.34952875259966, -6.11242476909857, -.55162165381254, -3.93575751984045, 0.0291904407359078, 4.20436312908138, 2.88319060901745, 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0, 00.42891671924381, 00.137140947127037, , -0.0236421293809049, 0, , , 1, , 0, 1, , 1, 1, 0, 1, , , , -, 0, , 1, 1, , , -0 , , 1, , 0, 1, , 1, 1, 0, 1, , , , -, 0, , 1, 1, , , , 0, , , 0.00179662678945844, 1, 0, , , 1.81016282031273, -0.498534416179201, -0.31330570053407, -0.373091972095863, 0, , 0, , , 1, 1, 1, 1, 0, 0, 1, 10.6546185811123, , 0, 0, 0, , 0), c(, 2, ), c(1.79782111299179, , , 0.821872197943033, 2), 0.819398699684071, "ATE", list(maxIter = 30L), list(n.sim = 3L, n.burn.init = 0L, n.burn.cell = 0L, n.thin = 2L, n.thread = 12L), TRUE)
2: eval(cibartCall, parent.frame())
3: eval(cibartCall, parent.frame(-0.231372833504722))
4: treatSens.BART(Y ~ Z + X, nsim = 3, nthin = 2, nburn = 0, spy.range = c(, ), spz.range = c(-0.6868467188050815, -22, nburn = 0, spy.range = c(, ), grid.dim = c(5, 3), standardize = FALSE, verbose = TRUE)
An irrecoverable exception occurred. R is aborting now ...
*** caught segfault ***
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
*** caught segfault ***
*** caught segfault ***
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
Error in treatSens:::cibart(c(-.977602231219702, -3.70603922044676, 2.496600707264, -0.526105914999057, :
attempt to set index 444/444 in SET_STRING_ELT
Calls: treatSens.BART -> eval -> eval -> <Anonymous>
Execution halted
Warning: stack imbalance in 'lazyLoadDBfetch', 12 then 18
Warning: stack imbalance in '$', 30 then 31
Error in readRDS(nsInfoFilePath) :
attempt to set index 306/306 in SET_STRING_ELT
Calls: <Anonymous> ... asNamespace -> getNamespace -> loadNamespace -> readRDS
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 2.1.3
Check: running examples for arch ‘i386’
Result: ERROR
Running examples in 'treatSens-Ex.R' failed
The error most likely occurred in:
> ### Name: treatSens.BART
> ### Title: Dual-Parameter Sensitivity Analysis Using BART
> ### Aliases: treatSens.BART
>
> ### ** Examples
>
> N <- 250 # number of observations
>
> zetay <- 0.5 # coefficient on U in the outcome model
> zetaz <- 0.5 # coefficient on U in the treatment model
> betaz <- c(0.75, -0.5, 0.25) # coefficients of X in the treatment model
> betay <- c(0.5, 1.0, -1.5) # coefficients of X in the outcome model
> tau <- 0.25 # treatment effect
>
> set.seed(725)
> X <- matrix(rnorm(3 * N), N) # covariates
>
> U <- rbinom(N, 1, 0.5) # unmeasured confounder
> ps <- pnorm(X %*% betaz + zetaz * (U - 0.5)) # propensity score
> Z <- rbinom(N, 1, ps) # treatment variable
> epsilon <- rnorm(N, 0.0, 2.0) # error term
>
> Y0 <- X %*% betay + zetay * (U - 0.5) + epsilon # potential outcome(Z=0)
> Y1 <- X %*% betay + zetay * (U - 0.5) + tau + epsilon # potential outcome(Z=1)
> Y <- Y0 * (1 - Z) + Y1 * Z # realization of potential outcome
>
> # sensitivity analysis
> out.bin <- treatSens.BART(Y ~ Z + X, nsim = 3, nthin = 2, nburn = 0,
+ spy.range = c(0, 4), spz.range = c(-2 , 2), grid.dim = c(5, 3),
+ standardize = FALSE, verbose = TRUE)
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Binary U with binomial distribution is assumed.
"ATE" option is selected. Sensitivity analysis is performed with the default Weights for the average treatment effect.
Weight trimming is applied. The maximum size of weights is set to 25 , which is 10 % of the size of the inferential group.
Computing final grid...
Flavor: r-devel-windows-ix86+x86_64
Version: 2.1.3
Check: running examples for arch ‘x64’
Result: ERROR
Running examples in 'treatSens-Ex.R' failed
The error most likely occurred in:
> ### Name: treatSens.BART
> ### Title: Dual-Parameter Sensitivity Analysis Using BART
> ### Aliases: treatSens.BART
>
> ### ** Examples
>
> N <- 250 # number of observations
>
> zetay <- 0.5 # coefficient on U in the outcome model
> zetaz <- 0.5 # coefficient on U in the treatment model
> betaz <- c(0.75, -0.5, 0.25) # coefficients of X in the treatment model
> betay <- c(0.5, 1.0, -1.5) # coefficients of X in the outcome model
> tau <- 0.25 # treatment effect
>
> set.seed(725)
> X <- matrix(rnorm(3 * N), N) # covariates
>
> U <- rbinom(N, 1, 0.5) # unmeasured confounder
> ps <- pnorm(X %*% betaz + zetaz * (U - 0.5)) # propensity score
> Z <- rbinom(N, 1, ps) # treatment variable
> epsilon <- rnorm(N, 0.0, 2.0) # error term
>
> Y0 <- X %*% betay + zetay * (U - 0.5) + epsilon # potential outcome(Z=0)
> Y1 <- X %*% betay + zetay * (U - 0.5) + tau + epsilon # potential outcome(Z=1)
> Y <- Y0 * (1 - Z) + Y1 * Z # realization of potential outcome
>
> # sensitivity analysis
> out.bin <- treatSens.BART(Y ~ Z + X, nsim = 3, nthin = 2, nburn = 0,
+ spy.range = c(0, 4), spz.range = c(-2 , 2), grid.dim = c(5, 3),
+ standardize = FALSE, verbose = TRUE)
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Binary U with binomial distribution is assumed.
"ATE" option is selected. Sensitivity analysis is performed with the default Weights for the average treatment effect.
Weight trimming is applied. The maximum size of weights is set to 25 , which is 10 % of the size of the inferential group.
Computing final grid...
Flavor: r-devel-windows-ix86+x86_64
Version: 2.1.3
Check: examples
Result: ERROR
Running examples in ‘treatSens-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: treatSens.BART
> ### Title: Dual-Parameter Sensitivity Analysis Using BART
> ### Aliases: treatSens.BART
>
> ### ** Examples
>
> N <- 250 # number of observations
>
> zetay <- 0.5 # coefficient on U in the outcome model
> zetaz <- 0.5 # coefficient on U in the treatment model
> betaz <- c(0.75, -0.5, 0.25) # coefficients of X in the treatment model
> betay <- c(0.5, 1.0, -1.5) # coefficients of X in the outcome model
> tau <- 0.25 # treatment effect
>
> set.seed(725)
> X <- matrix(rnorm(3 * N), N) # covariates
>
> U <- rbinom(N, 1, 0.5) # unmeasured confounder
> ps <- pnorm(X %*% betaz + zetaz * (U - 0.5)) # propensity score
> Z <- rbinom(N, 1, ps) # treatment variable
> epsilon <- rnorm(N, 0.0, 2.0) # error term
>
> Y0 <- X %*% betay + zetay * (U - 0.5) + epsilon # potential outcome(Z=0)
> Y1 <- X %*% betay + zetay * (U - 0.5) + tau + epsilon # potential outcome(Z=1)
> Y <- Y0 * (1 - Z) + Y1 * Z # realization of potential outcome
>
> # sensitivity analysis
> out.bin <- treatSens.BART(Y ~ Z + X, nsim = 3, nthin = 2, nburn = 0,
+ spy.range = c(0, 4), spz.range = c(-2 , 2), grid.dim = c(5, 3),
+ standardize = FALSE, verbose = TRUE)
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Binary U with binomial distribution is assumed.
"ATE" option is selected. Sensitivity analysis is performed with the default Weights for the average treatment effect.
Weight trimming is applied. The maximum size of weights is set to 25 , which is 10 % of the size of the inferential group.
Computing final grid...
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
Error in treatSens:::cibart(c(, -3.70603922044676, 2.496600707264, , -2.92570861620553, :
Value of SET_STRING_ELT() must be a 'CHARSXP' not a 'NULL'
Calls: treatSens.BART -> eval -> eval -> <Anonymous>
Execution halted
Warning: stack imbalance in 'lapply', 50 then 49
Warning: stack imbalance in 'vapply', 38 then 36
Warning: stack imbalance in '<-', 45 then 48
Warning: stack imbalance in '$', 50 then 53
Warning: stack imbalance in '<-', 48 then 51
*** caught segfault ***
address (nil), cause 'memory not mapped'
Warning: stack imbalance in '!=', 61 then 60
Traceback:
1: readRDS(mapfile)
2: lazyLoadDBexec(filebase, fun, filter)
3: lazyLoad(dbbase, ns, filter = function(n) n != ".__NAMESPACE__.")
4: eval(quote({ info <- loadingNamespaceInfo() pkg <- info$pkgname ns <- .getNamespace(as.name(pkg)) if (is.null(ns)) stop("cannot find namespace environment for ", pkg, domain = NA) dbbase <- file.path(info$libname, pkg, "R", pkg) lazyLoad(dbbase, ns, filter = function(n) n != ".__NAMESPACE__.")}), new.env())
5: eval(quote({ info <- loadingNamespaceInfo() pkg <- info$pkgname ns <- .getNamespace(as.name(pkg)) if (is.null(ns)) stop("cannot find namespace environment for ", pkg, domain = NA) dbbase <- file.path(info$libname, pkg, "R", pkg) lazyLoad(dbbase, ns, filter = function(n) n != ".__NAMESPACE__.")}), new.env())
6: eval(expr, p)
7: eval(expr, p)
8: eval.parent(substitute(eval(quote(expr), envir)))
9: local({ info <- loadingNamespaceInfo() pkg <- info$pkgname ns <- .getNamespace(as.name(pkg)) if (is.null(ns)) stop("cannot find namespace environment for ", pkg, domain = NA) dbbase <- file.path(info$libname, pkg, "R", pkg) lazyLoad(dbbase, ns, filter = function(n) n != ".__NAMESPACE__.")})
10: eval(exprs[i], envir)
11: eval(exprs[i], envir)
12: sys.source(codeFile, env, keep.source = keep.source, keep.parse.data = keep.parse.data)
13: doTryCatch(return(expr), name, parentenv, handler)
14: tryCatchOne(expr, names, parentenv, handlers[[1L]])
15: tryCatchList(expr, classes, parentenv, handlers)
16: tryCatch(expr, error = function(e) { call <- conditionCall(e) if (!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch))) call <- sys.call(-4L) dcall <- deparse(call)[1L] prefix <- paste("Error in", dcall, ": ") LONG <- 75L sm <- strsplit(conditionMessage(e), "\n")[[1L]] w <- 14L + nchar(dcall, type = "w") + nchar(sm[1L], type = "w") if (is.na(w)) w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], type = "b") if (w > LONG) prefix <- paste0(prefix, "\n ") } else prefix <- "Error : " msg <- paste0(prefix, conditionMessage(e), "\n") .Internal(seterrmessage(msg[1L])) if (!silent && isTRUE(getOption("show.error.messages"))) { cat(msg, file = outFile) .Internal(printDeferredWarnings()) } invisible(structure(msg, class = "try-error", condition = e))})
17: try(sys.source(codeFile, env, keep.source = keep.source, keep.parse.data = keep.parse.data))
18: loadNamespace(name)
19: getNamespace(ns)
20: asNamespace(ns)
21: getExportedValue(pkg, name)
22: tools::SIGKILL
23: cleanup(kill = tools::SIGKILL, detach = TRUE, shutdown = TRUE)
24: (function (e) cleanup(kill = tools::SIGKILL, detach = TRUE, shutdown = TRUE))(<environment>)
An irrecoverable exception occurred. R is aborting now ...
*** caught segfault ***
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
*** caught segfault ***
address (nil), cause 'memory not mapped'
*** caught segfault ***
*** caught segfault ***
address (nil), cause 'memory not mapped'
address (nil), cause 'memory not mapped'
Warning: stack imbalance in 'options', 30 then 28
Segmentation fault
Flavor: r-patched-linux-x86_64
Version: 2.1.3
Check: examples
Result: ERROR
Running examples in ‘treatSens-Ex.R’ failed
The error most likely occurred in:
> ### Name: treatSens.BART
> ### Title: Dual-Parameter Sensitivity Analysis Using BART
> ### Aliases: treatSens.BART
>
> ### ** Examples
>
> N <- 250 # number of observations
>
> zetay <- 0.5 # coefficient on U in the outcome model
> zetaz <- 0.5 # coefficient on U in the treatment model
> betaz <- c(0.75, -0.5, 0.25) # coefficients of X in the treatment model
> betay <- c(0.5, 1.0, -1.5) # coefficients of X in the outcome model
> tau <- 0.25 # treatment effect
>
> set.seed(725)
> X <- matrix(rnorm(3 * N), N) # covariates
>
> U <- rbinom(N, 1, 0.5) # unmeasured confounder
> ps <- pnorm(X %*% betaz + zetaz * (U - 0.5)) # propensity score
> Z <- rbinom(N, 1, ps) # treatment variable
> epsilon <- rnorm(N, 0.0, 2.0) # error term
>
> Y0 <- X %*% betay + zetay * (U - 0.5) + epsilon # potential outcome(Z=0)
> Y1 <- X %*% betay + zetay * (U - 0.5) + tau + epsilon # potential outcome(Z=1)
> Y <- Y0 * (1 - Z) + Y1 * Z # realization of potential outcome
>
> # sensitivity analysis
> out.bin <- treatSens.BART(Y ~ Z + X, nsim = 3, nthin = 2, nburn = 0,
+ spy.range = c(0, 4), spz.range = c(-2 , 2), grid.dim = c(5, 3),
+ standardize = FALSE, verbose = TRUE)
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
Binary U with binomial distribution is assumed.
*** caught segfault ***
address 40268097, cause 'memory not mapped'
Traceback:
1: .Call(C_dbarts_run, ptr, as.integer(numBurnIn), as.integer(numSamples))
2: sampler$run(0L, control@n.burn, FALSE)
3: dbarts::bart(x.train = X.train, y.train = Y, x.test = X.test, verbose = FALSE)
4: treatSens.BART(Y ~ Z + X, nsim = 3, nthin = 2, nburn = 0, spy.range = c(0, 4), spz.range = c(-2, 2), grid.dim = c(5, 3), standardize = FALSE, verbose = TRUE)
An irrecoverable exception occurred. R is aborting now ...
Flavor: r-patched-solaris-x86
Version: 2.1.3
Check: tests
Result: ERROR
Running ‘testthat.R’ [3s/11s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> Sys.setenv("R_TESTS" = "")
> if (require(testthat, quietly = TRUE)) {
+ require(treatSens)
+ test_check("treatSens")
+ } else {
+ cat("package 'testthat' not available; cannot run unit tests\n")
+ }
Loading required package: treatSens
Loading required package: Rcpp
*** caught segfault ***
address 40222816, cause 'memory not mapped'
Traceback:
1: treatSens:::cibart(data$y, data$z, data$x, data$x.test, data$zeta.y, data$zeta.z, data$theta, "ATE", probit(family = "normal"), control)
2: doTryCatch(return(expr), name, parentenv, handler)
3: tryCatchOne(expr, names, parentenv, handlers[[1L]])
4: tryCatchList(expr, classes, parentenv, handlers)
5: tryCatch(treatSens:::cibart(data$y, data$z, data$x, data$x.test, data$zeta.y, data$zeta.z, data$theta, "ATE", probit(family = "normal"), control), error = function(e) e)
6: eval(code, test_env)
7: eval(code, test_env)
8: withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error)
9: doTryCatch(return(expr), name, parentenv, handler)
10: tryCatchOne(expr, names, parentenv, handlers[[1L]])
11: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
12: doTryCatch(return(expr), name, parentenv, handler)
13: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]), names[nh], parentenv, handlers[[nh]])
14: tryCatchList(expr, classes, parentenv, handlers)
15: tryCatch(withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error), error = handle_fatal, skip = function(e) { })
16: test_code(desc, code, env = parent.frame())
17: test_that("cibart works with various treatmentModel specification methods", { data <- generateData() control <- treatSens:::cibartControl(5L, 20L, n.thin = 3L, n.thread = 1L) result <- tryCatch(treatSens:::cibart(data$y, data$z, data$x, data$x.test, data$zeta.y, data$zeta.z, data$theta, "ATE", probit(family = "normal"), control), error = function(e) e) expect_is(result, "list") result <- tryCatch(treatSens:::cibart(data$y, data$z, data$x, data$x.test, data$zeta.y, data$zeta.z, data$theta, "ATE", probit, control), error = function(e) e) expect_is(result, "list") result <- tryCatch(treatSens:::cibart(data$y, data$z, data$x, data$x.test, data$zeta.y, data$zeta.z, data$theta, "ATE", "probit(family = 'normal')", control), error = function(e) e) expect_is(result, "list") result <- tryCatch(treatSens:::cibart(data$y, data$z, data$x, data$x.test, data$zeta.y, data$zeta.z, data$theta, "ATE", "probit", control), error = function(e) e) expect_is(result, "list") trtModel <- treatSens:::probit(family = "normal") result <- tryCatch(treatSens:::cibart(data$y, data$z, data$x, data$x.test, data$zeta.y, data$zeta.z, data$theta, "ATE", trtModel, control), error = function(e) e) expect_is(result, "list") expect_error(treatSens:::cibart(data$y, data$z, data$x, data$x.test, data$zeta.y, data$zeta.z, data$theta, "ATE", notAnObject, control)) })
18: eval(code, test_env)
19: eval(code, test_env)
20: withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error)
21: doTryCatch(return(expr), name, parentenv, handler)
22: tryCatchOne(expr, names, parentenv, handlers[[1L]])
23: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
24: doTryCatch(return(expr), name, parentenv, handler)
25: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]), names[nh], parentenv, handlers[[nh]])
26: tryCatchList(expr, classes, parentenv, handlers)
27: tryCatch(withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error), error = handle_fatal, skip = function(e) { })
28: test_code(NULL, exprs, env)
29: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
30: force(code)
31: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter, { lister$start_file(basename(path)) source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap) end_context() })
32: FUN(X[[i]], ...)
33: lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
34: force(code)
35: with_reporter(reporter = current_reporter, results <- lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap))
36: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
37: test_dir(path = test_path, reporter = reporter, env = env, filter = filter, ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
38: test_package_dir(package = package, test_path = test_path, filter = filter, reporter = reporter, ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
39: test_check("treatSens")
An irrecoverable exception occurred. R is aborting now ...
Flavor: r-patched-solaris-x86