CRAN Package Check Results for Maintainer Shikhar Tyagi <shikhar1093tyagi at gmail.com>

CRAN Package Check Results for Maintainer ‘Shikhar Tyagi <shikhar1093tyagi at gmail.com>’

Last updated on 2026-10-24 01:52:21 CEST.

Package	OK	NOTE	ERROR
AdaptHyCensor	13
AlphaPowerHazard	13
ArvindRF	13
ArvindSt	13
AugBalWeight	13
BayesPanelUR	13
BayesQRCount	13
BayesSplineUR	13
BayesURTrend	13
BDPTobitQR	13
CompRiskRel	13
CoxAalenCR	12		1
coxmnar	13
DepDoubleTruncKS	13
GammaFrailty	13
GammaFrailtySPC	13
gofLorenz	13
gofmalm	13
gofPHCS	13
Gofpt2	13
gpci	13
gpciEMprogII	13
gpcihybridII	13
gpcihybridIIEM	13
gpcihybridIIImpSam	13
gpcihybridIILinApp	13
gpcihybridIImcmc	13
gpciImpSam	13
gpciIntCensor	13
gpciLindApproxProgII	13
gpciLindleyApprox	13
gpciProgTyII	13
gpciProgTyIIImpSam	13
IGPFrailty	7	6
ImpAdaptType2Censor	13
LugsailGR	13
MAARTS	13
MleCensoR	13
ModToppLeone	13
MTLRF	13
MultiFrailty	13
MultiStepSSAD	13
MYIS	13
OneShotEM	13
pHMC	13
PowerXgammaRF	13
predHCS	13
ProcessCapabilityR	13
SemiParamBernsteinDepCS	13
SingRegKrig	13
StochFracPoisson	13
StressCensoR	13
TieFreeCensor	13
TKApprox	13
UniCensor	13
UniCensorEM	11	2
UniIS	13
UniLindleyApprox	13

Version: 0.1.0
Check: examples
Result: ERROR Running examples in ‘CoxAalenCR-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: cif_predict > ### Title: Predict Cumulative Incidence Functions for Cox-Aalen Model > ### Aliases: cif_predict > > ### ** Examples > > set.seed(123) > dat <- simulate_coxaalen(n = 60, p = 0.3, censoring = "cox", cens_rate = 0.20) > fit <- cox_aalen_fit( + time = dat$time, + status = dat$status, + X = cbind(Intercept = 1, X = dat$X), + Z = matrix(dat$Z, ncol = 1, dimnames = list(NULL, "Z")), + W = dat$W + ) Error in a$specials[[i]] : subscript out of bounds Calls: cox_aalen_fit ... survfit.coxph -> model.matrix.coxph -> delete.response -> off Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.1.0
Check: tests
Result: ERROR Running ‘testthat.R’ [2s/3s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(CoxAalenCR) > > test_check("CoxAalenCR") Saving _problems/test-coxaalen-11.R Saving _problems/test-coxaalen-38.R Saving _problems/test-coxaalen-121.R [ FAIL 3 | WARN 0 | SKIP 0 | PASS 33 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-coxaalen.R:11:3'): km_weights and cox_weights return valid structures ── <subscriptOutOfBoundsError/error/condition> Error in `a$specials[[i]]`: subscript out of bounds Backtrace: ▆ 1. └─CoxAalenCR::cox_weights(dat$time, dat$status, dat$W) at test-coxaalen.R:11:3 2. └─survival::basehaz(cox_fit, centered = FALSE) 3. ├─survival::survfit(fit, se.fit = FALSE) 4. └─survival:::survfit.coxph(fit, se.fit = FALSE) 5. └─survival:::model.matrix.coxph(object, data = mf) 6. └─stats::delete.response(object$terms) 7. └─stats (local) off(a$specials[[i]]) ── Error ('test-coxaalen.R:33:3'): cox_aalen_fit and formula interface work accurately ── <subscriptOutOfBoundsError/error/condition> Error in `a$specials[[i]]`: subscript out of bounds Backtrace: ▆ 1. └─CoxAalenCR::cox_aalen(...) at test-coxaalen.R:33:3 2. └─CoxAalenCR::cox_aalen_fit(...) 3. └─CoxAalenCR::cox_weights(time, status, W_mat) 4. └─survival::basehaz(cox_fit, centered = FALSE) 5. ├─survival::survfit(fit, se.fit = FALSE) 6. └─survival:::survfit.coxph(fit, se.fit = FALSE) 7. └─survival:::model.matrix.coxph(object, data = mf) 8. └─stats::delete.response(object$terms) 9. └─stats (local) off(a$specials[[i]]) ── Error ('test-coxaalen.R:116:3'): tamoxifen dataset is loaded and fits model ── <subscriptOutOfBoundsError/error/condition> Error in `a$specials[[i]]`: subscript out of bounds Backtrace: ▆ 1. └─CoxAalenCR::cox_aalen(...) at test-coxaalen.R:116:3 2. └─CoxAalenCR::cox_aalen_fit(...) 3. └─CoxAalenCR::cox_weights(time, status, W_mat) 4. └─survival::basehaz(cox_fit, centered = FALSE) 5. ├─survival::survfit(fit, se.fit = FALSE) 6. └─survival:::survfit.coxph(fit, se.fit = FALSE) 7. └─survival:::model.matrix.coxph(object, data = mf) 8. └─stats::delete.response(object$terms) 9. └─stats (local) off(a$specials[[i]]) [ FAIL 3 | WARN 0 | SKIP 0 | PASS 33 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.1.0
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘CoxAalenCR-intro.Rmd’ using rmarkdown Quitting from CoxAalenCR-intro.Rmd:71-79 [unnamed-chunk-2] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `a$specials[[i]]`: ! subscript out of bounds --- Backtrace: ▆ 1. └─CoxAalenCR::cox_aalen(...) 2. └─CoxAalenCR::cox_aalen_fit(...) 3. └─CoxAalenCR::cox_weights(time, status, W_mat) 4. └─survival::basehaz(cox_fit, centered = FALSE) 5. ├─survival::survfit(fit, se.fit = FALSE) 6. └─survival:::survfit.coxph(fit, se.fit = FALSE) 7. └─survival:::model.matrix.coxph(object, data = mf) 8. └─stats::delete.response(object$terms) 9. └─stats (local) off(a$specials[[i]]) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'CoxAalenCR-intro.Rmd' failed with diagnostics: subscript out of bounds --- failed re-building ‘CoxAalenCR-intro.Rmd’ SUMMARY: processing the following file failed: ‘CoxAalenCR-intro.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Package coxmnar

Current CRAN status: OK: 13

Package DepDoubleTruncKS

Current CRAN status: OK: 13

Package GammaFrailty

Current CRAN status: OK: 13

Package GammaFrailtySPC

Current CRAN status: OK: 13

Package gofLorenz

Current CRAN status: OK: 13

Package gofmalm

Current CRAN status: OK: 13

Package gofPHCS

Current CRAN status: OK: 13

Package Gofpt2

Current CRAN status: OK: 13

Package gpci

Current CRAN status: OK: 13

Package gpciEMprogII

Current CRAN status: OK: 13

Package gpcihybridII

Current CRAN status: OK: 13

Package gpcihybridIIEM

Current CRAN status: OK: 13

Package gpcihybridIIImpSam

Current CRAN status: OK: 13

Package gpcihybridIILinApp

Current CRAN status: OK: 13

Package gpcihybridIImcmc

Current CRAN status: OK: 13

Package gpciImpSam

Current CRAN status: OK: 13

Package gpciIntCensor

Current CRAN status: OK: 13

Package gpciLindApproxProgII

Current CRAN status: OK: 13

Package gpciLindleyApprox

Current CRAN status: OK: 13

Package gpciProgTyII

Current CRAN status: OK: 13

Package gpciProgTyIIImpSam

Current CRAN status: OK: 13

Package IGPFrailty

Current CRAN status: OK: 7, NOTE: 6

Version: 0.1.0
Check: top-level files
Result: NOTE Non-standard file/directory found at top level: ‘cran-comments.md’ 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-patched-linux-x86_64, r-release-linux-x86_64

Package ImpAdaptType2Censor

Current CRAN status: OK: 13

Package LugsailGR

Current CRAN status: OK: 13

Package MAARTS

Current CRAN status: OK: 13

Package MleCensoR

Current CRAN status: OK: 13

Package ModToppLeone

Current CRAN status: OK: 13

Package MTLRF

Current CRAN status: OK: 13

Package MultiFrailty

Current CRAN status: OK: 13

Package MultiStepSSAD

Current CRAN status: OK: 13

Package MYIS

Current CRAN status: OK: 13

Package OneShotEM

Current CRAN status: OK: 13

Package pHMC

Current CRAN status: OK: 13

Package PowerXgammaRF

Current CRAN status: OK: 13

Package predHCS

Current CRAN status: OK: 13

Package ProcessCapabilityR

Current CRAN status: OK: 13

Package SemiParamBernsteinDepCS

Current CRAN status: OK: 13

Package SingRegKrig

Current CRAN status: OK: 13

Package StochFracPoisson

Current CRAN status: OK: 13

Package StressCensoR

Current CRAN status: OK: 13

Package TieFreeCensor

Current CRAN status: OK: 13

Package TKApprox

Current CRAN status: OK: 13

Package UniCensor

Current CRAN status: OK: 13

Package UniCensorEM

Current CRAN status: OK: 11, NOTE: 2

Version: 0.1.0
Check: dependencies in R code
Result: NOTE Namespaces in Imports field not imported from: ‘grDevices’ ‘methods’ ‘utils’ All declared Imports should be used. Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Package UniIS

Current CRAN status: OK: 13

Package UniLindleyApprox

Current CRAN status: OK: 13