Check results for 'dsem'

using R version 4.3.3 (2024-02-29)
using platform: aarch64-apple-darwin20 (64-bit)
R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0
running under: macOS Ventura 13.4
using session charset: UTF-8
checking for file ‘dsem/DESCRIPTION’ ... OK
checking extension type ... Package
this is package ‘dsem’ version ‘1.4.0’
package encoding: UTF-8
checking package namespace information ... OK
checking package dependencies ... OK
checking if this is a source package ... OK
checking if there is a namespace ... OK
checking for executable files ... OK
checking for hidden files and directories ... OK
checking for portable file names ... OK
checking for sufficient/correct file permissions ... OK
checking whether package ‘dsem’ can be installed ... [67s/70s] OK See the install log for details.
used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
used SDK: ‘MacOSX11.3.sdk’
checking installed package size ... NOTE installed size is 85.0Mb sub-directories of 1Mb or more: libs 84.3Mb
checking package directory ... OK
checking ‘build’ directory ... OK
checking DESCRIPTION meta-information ... OK
checking top-level files ... OK
checking for left-over files ... OK
checking index information ... OK
checking package subdirectories ... OK
checking R files for non-ASCII characters ... OK
checking R files for syntax errors ... OK
checking whether the package can be loaded ... [2s/2s] OK
checking whether the package can be loaded with stated dependencies ... [2s/2s] OK
checking whether the package can be unloaded cleanly ... [2s/2s] OK
checking whether the namespace can be loaded with stated dependencies ... [2s/2s] OK
checking whether the namespace can be unloaded cleanly ... [2s/2s] OK
checking loading without being on the library search path ... [2s/2s] OK
checking startup messages can be suppressed ... [2s/2s] OK
checking dependencies in R code ... OK
checking S3 generic/method consistency ... OK
checking replacement functions ... OK
checking foreign function calls ... OK
checking R code for possible problems ... [7s/8s] OK
checking Rd files ... [0s/0s] OK
checking Rd metadata ... OK
checking Rd cross-references ... OK
checking for missing documentation entries ... OK
checking for code/documentation mismatches ... OK
checking Rd \usage sections ... OK
checking Rd contents ... OK
checking for unstated dependencies in examples ... OK
checking contents of ‘data’ directory ... OK
checking data for non-ASCII characters ... [0s/0s] OK
checking LazyData ... OK
checking data for ASCII and uncompressed saves ... OK
checking line endings in C/C++/Fortran sources/headers ... OK
checking line endings in Makefiles ... OK
checking compilation flags in Makevars ... OK
checking for GNU extensions in Makefiles ... OK
checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
checking use of PKG_*FLAGS in Makefiles ... OK
checking compiled code ... OK
checking installed files from ‘inst/doc’ ... OK
checking files in ‘vignettes’ ... OK
checking examples ... [3s/4s] ERROR Running examples in ‘dsem-Ex.R’ failed The error most likely occurred in: > ### Name: dsemRTMB > ### Title: Fit dynamic structural equation model > ### Aliases: dsemRTMB > > ### ** Examples > > # Define model > sem = " + # Link, lag, param_name + cprofits -> consumption, 0, a1 + cprofits -> consumption, 1, a2 + pwage -> consumption, 0, a3 + gwage -> consumption, 0, a3 + cprofits -> invest, 0, b1 + cprofits -> invest, 1, b2 + capital -> invest, 0, b3 + gnp -> pwage, 0, c2 + gnp -> pwage, 1, c3 + time -> pwage, 0, c1 + " > > # Load data > data(KleinI, package="AER") > TS = ts(data.frame(KleinI, "time"=time(KleinI) - 1931)) > tsdata = TS[,c("time","gnp","pwage","cprofits",'consumption', + "gwage","invest","capital")] > > # Fit model > fit = dsemRTMB( sem=sem, + tsdata = tsdata, + estimate_delta0 = TRUE, + control = dsem_control(quiet=TRUE) ) Read 10 records Error in advector(e1) : Invalid argument to 'advector' (lost class attribute?) Calls: dsemRTMB ... dgmrf -> as.vector -> Ops.advector -> Arith2 -> advector Execution halted
checking for unstated dependencies in ‘tests’ ... OK
checking tests ... [6s/7s] ERROR Running ‘testthat.R’ [6s/7s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > > > library(testthat) > library(dsem) > > # Run tests > testthat::test_check("dsem") Read 5 records Coefficient_name Number_of_coefficients Type 1 beta_z 7 Fixed 2 delta0_j 2 Fixed 3 lnsigma_j 2 Fixed 4 mu_j 2 Random 5 x_tj 122 Random Read 5 records Coefficient_name Number_of_coefficients Type 1 beta_z 7 Fixed 2 delta0_j 2 Fixed 3 mu_j 2 Random 4 x_tj 122 Random Read 5 records Coefficient_name Number_of_coefficients Type 1 beta_z 7 Fixed 2 delta0_j 2 Fixed 3 mu_j 2 Random 4 x_tj 122 Random Read 5 records Coefficient_name Number_of_coefficients Type 1 beta_z 6 Fixed 2 delta0_j 2 Fixed 3 mu_j 2 Random Read 4 records Coefficient_name Number_of_coefficients Type 1 beta_z 6 Fixed 2 delta0_j 2 Fixed 3 mu_j 2 Random Read 4 records Coefficient_name Number_of_coefficients Type 1 beta_z 6 Fixed 2 mu_j 2 Random Read 4 records Coefficient_name Number_of_coefficients Type 1 beta_z 6 Fixed 2 delta0_j 2 Fixed 3 mu_j 2 Random Read 10 records Coefficient_name Number_of_coefficients Type 1 beta_z 17 Fixed 2 mu_j 8 Random Read 10 records Read 0 records Coefficient_name Number_of_coefficients Type 1 beta_z 2 Fixed 2 mu_j 2 Random Read 2 records Coefficient_name Number_of_coefficients Type 1 beta_z 2 Fixed 2 mu_j 2 Random Read 16 records Coefficient_name Number_of_coefficients Type 1 beta_z 24 Fixed 2 mu_j 8 Fixed 3 x_tj 232 Random Read 4 records Coefficient_name Number_of_coefficients Type 1 beta_z 5 Fixed 2 mu_j 4 Random Read 4 records Read 16 records [ FAIL 5 | WARN 12 | SKIP 0 | PASS 4 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-gmrf-versions.R:75:3'): dsem constant-variance options ────── apply(margvar, MARGIN = 2, FUN = sd) not equal to c(0, 0). 2/2 mismatches (average diff: NaN) [1] NA - 0 == NA [2] NA - 0 == NA ── Failure ('test-gmrf-versions.R:94:3'): dsem constant-variance options ────── apply(margvar, MARGIN = 2, FUN = sd) not equal to c(0, 0). 2/2 mismatches (average diff: NaN) [1] NA - 0 == NA [2] NA - 0 == NA ── Error ('test-platform.R:34:3'): dsem example is working ──────────────────── Error in `advector(e2)`: Invalid argument to 'advector' (lost class attribute?) Backtrace: ▆ 1. └─dsem::dsemRTMB(sem = sem, tsdata = tsdata, control = dsem_control(getsd = FALSE)) at test-platform.R:34:3 2. └─RTMB::MakeADFun(...) 3. └─obj$retape() 4. └─RTMB:::MakeADFunObject(...) 5. └─RTMB:::.MakeTape(mapfunc, obj$env$par) 6. └─RTMB (local) f(x) 7. └─dsem (local) func(pl) 8. └─dsem (local) f(p, ...) 9. └─RTMB::dgmrf(...) 10. └─RTMB::Ops.advector(as.vector(x), as.vector(mu)) 11. ├─RTMB:::Arith2(advector(e1), advector(e2), .Generic) 12. └─RTMB::advector(e2) ── Error ('test-platform.R:160:3'): Fixing parameters works ─────────────────── Error in `advector(e2)`: Invalid argument to 'advector' (lost class attribute?) Backtrace: ▆ 1. └─dsem::dsemRTMB(sem = sem, tsdata = tsdata, control = dsem_control(getsd = FALSE)) at test-platform.R:160:3 2. └─RTMB::MakeADFun(...) 3. └─obj$retape() 4. └─RTMB:::MakeADFunObject(...) 5. └─RTMB:::.MakeTape(mapfunc, obj$env$par) 6. └─RTMB (local) f(x) 7. └─dsem (local) func(pl) 8. └─dsem (local) f(p, ...) 9. └─RTMB::dgmrf(...) 10. └─RTMB::Ops.advector(as.vector(x), as.vector(mu)) 11. ├─RTMB:::Arith2(advector(e1), advector(e2), .Generic) 12. └─RTMB::advector(e2) ── Error ('test-priors.R:43:3'): priors interface is working ────────────────── Error in `advector(e2)`: Invalid argument to 'advector' (lost class attribute?) Backtrace: ▆ 1. └─dsem::dsemRTMB(...) at test-priors.R:43:3 2. └─RTMB::MakeADFun(...) 3. └─obj$retape() 4. └─RTMB:::MakeADFunObject(...) 5. └─RTMB:::.MakeTape(mapfunc, obj$env$par) 6. └─RTMB (local) f(x) 7. └─dsem (local) func(pl) 8. └─dsem (local) f(p, ...) 9. └─RTMB::dgmrf(...) 10. └─RTMB::Ops.advector(as.vector(x), as.vector(mu)) 11. ├─RTMB:::Arith2(advector(e1), advector(e2), .Generic) 12. └─RTMB::advector(e2) [ FAIL 5 | WARN 12 | SKIP 0 | PASS 4 ] Error: Test failures Execution halted
checking for unstated dependencies in vignettes ... OK
checking package vignettes in ‘inst/doc’ ... OK
checking re-building of vignette outputs ... [40s/49s] OK
checking PDF version of manual ... [4s/5s] OK
DONE Status: 2 ERRORs, 1 NOTE
using check arguments '--no-clean-on-error '