CRAN Package Check Results for Package ctsem

Last updated on 2018-05-14 01:46:32 CEST.

Check Details

Version: 2.5.0
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: break used in wrong context: no loop is visible
    See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ctsem.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-devel-linux-x86_64-debian-clang

Version: 2.5.0
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: break used in wrong context: no loop is visible
    See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ctsem.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-devel-linux-x86_64-debian-gcc

Version: 2.5.0
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: break used in wrong context: no loop is visible
    See ‘/data/gannet/ripley/R/packages/tests-clang/ctsem.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 2.5.0
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: break used in wrong context: no loop is visible
    See ‘/data/gannet/ripley/R/packages/tests-devel/ctsem.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 2.5.0
Flags: --no-vignettes
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: break used in wrong context: no loop is visible
    See 'd:/Rcompile/CRANpkg/local/3.5/ctsem.Rcheck/00install.out' for details.
    Information on the location(s) of code generating the 'Note's can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to 'yes'.
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64

Version: 2.5.0
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: break used in wrong context: no loop is visible
    See ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/ctsem.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-patched-linux-x86_64

Version: 2.5.0
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: break used in wrong context: no loop is visible
    See ‘/home/ripley/R/packages/tests32/ctsem.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-patched-solaris-x86

Version: 2.5.0
Check: examples
Result: ERROR
    Running examples in ‘ctsem-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: ctGenerateFromFit
    > ### Title: Generates data according to the model estimated in a ctsemFit
    > ### object.#'
    > ### Aliases: ctGenerateFromFit
    >
    > ### ** Examples
    >
    >
    > data(AnomAuth)
    > AnomAuthmodel <- ctModel(LAMBDA = matrix(c(1, 0, 0, 1), nrow = 2, ncol = 2),
    + Tpoints = 5, n.latent = 2, n.manifest = 2, MANIFESTVAR=diag(0, 2))
    > AnomAuthfit <- ctFit(AnomAuth, AnomAuthmodel)
    Running ctsemCarefulFit with 14 parameters
    
     *** caught segfault ***
    address 0, cause 'memory not mapped'
    
    Traceback:
     1: runHelper(model, frontendStart, intervals, silent, suppressWarnings, unsafe, checkpoint, useSocket, onlyFrontend, useOptimizer)
     2: OpenMx::mxRun(model)
     3: withCallingHandlers(expr, warning = function(w) invokeRestart("muffleWarning"))
     4: suppressWarnings(OpenMx::mxRun(model))
     5: doTryCatch(return(expr), name, parentenv, handler)
     6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     7: tryCatchList(expr, classes, parentenv, handlers)
     8: 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))})
     9: try(suppressWarnings(OpenMx::mxRun(model)))
    10: carefulFit(model, traitExtension = traitExtension, manifestTraitvarExtension = manifestTraitvarExtension, weighting = carefulFitWeight)
    11: ctFit(AnomAuth, AnomAuthmodel)
    An irrecoverable exception occurred. R is aborting now ...
Flavor: r-patched-solaris-x86

Version: 2.5.0
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    Observations with missing time information found - removing 1 rows
    Discrete time points created: 4
    Extracting first non-missing value for time independent predictors
    imputedefs==FALSE (default, recommended) so setting observations with no time value to NA
    Running ctsemCarefulFit with 16 parameters
    
     *** caught segfault ***
    address 908, cause 'memory not mapped'
Flavor: r-patched-solaris-x86

Version: 2.5.0
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: break used in wrong context: no loop is visible
    See ‘/home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/ctsem.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-release-linux-x86_64

Version: 2.5.0
Check: whether package can be installed
Result: WARN
    Found the following significant warnings:
     Note: break used in wrong context: no loop is visible
    See ‘/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.5/ctsem.Rcheck/00install.out’ for details.
    Information on the location(s) of code generating the ‘Note’s can be
    obtained by re-running with environment variable R_KEEP_PKG_SOURCE set
    to ‘yes’.
Flavor: r-release-osx-x86_64

Version: 2.5.0
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    
    Begin fit attempt 2 of at maximum 16 tries
    
     Lowest minimum so far: 4203.31303320986
    
    Solution found
    
    NPSOL optimizer not available - switching to CSOLNP - consider installing OpenMx using command: source('http://openmx.psyc.virginia.edu/getOpenMx.R')
    Running ctsem with 19 parameters
    Unique discreteDRIFT calculations per step required = 5
    Unique discreteCINT calculations per step required = 5
    Unique discreteDIFFUSION calculations per step required = 5
    2 / 2 latent variables required for covariance calculations
    Compiling model, ignore forthcoming warning re number of chains...
    the number of chains is less than 1; sampling not done
    Sampling...
    error occurred during calling the sampler; sampling not done
    error occurred during calling the sampler; sampling not done
    Warning in .local(object, ...) :
     some chains had errors; consider specifying chains = 1 to debug
    here are whatever error messages were returned
    Quitting from lines 294-295 (hierarchical.rnw)
    Error: processing vignette 'hierarchical.rnw' failed with diagnostics:
    argument is of length zero
    Execution halted
Flavor: r-release-osx-x86_64

Version: 2.5.0
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    
     Lowest minimum so far: 4203.3130332814
    
    Solution found
    
    NPSOL optimizer not available - switching to CSOLNP - consider installing OpenMx using command: source('http://openmx.psyc.virginia.edu/getOpenMx.R')
    Running ctsem with 19 parameters
    Warning in has_utility("pdfcrop") :
     pdfcrop not installed or not in PATH
    Unique discreteDRIFT calculations per step required = 5
    Unique discreteCINT calculations per step required = 5
    Unique discreteDIFFUSION calculations per step required = 5
    2 / 2 latent variables required for covariance calculations
    Compiling model, ignore forthcoming warning re number of chains...
    the number of chains is less than 1; sampling not done
    Sampling...
    error occurred during calling the sampler; sampling not done
    error occurred during calling the sampler; sampling not done
    Warning in .local(object, ...) :
     some chains had errors; consider specifying chains = 1 to debug
    here are whatever error messages were returned
    Quitting from lines 294-295 (hierarchical.rnw)
    Error: processing vignette 'hierarchical.rnw' failed with diagnostics:
    argument is of length zero
    Execution halted
Flavor: r-oldrel-osx-x86_64