CRAN Package Check Results for Package NetRep

Last updated on 2020-05-25 01:48:58 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.2.1 155.83 150.46 306.29 OK
r-devel-linux-x86_64-debian-gcc 1.2.1 122.41 115.52 237.93 OK
r-devel-linux-x86_64-fedora-clang 1.2.1 428.04 NOTE
r-devel-linux-x86_64-fedora-gcc 1.2.1 382.70 OK
r-devel-windows-ix86+x86_64 1.2.1 394.00 260.00 654.00 NOTE
r-patched-linux-x86_64 1.2.1 124.12 150.57 274.69 OK
r-patched-solaris-x86 1.2.1 284.10 ERROR
r-release-linux-x86_64 1.2.1 125.71 150.98 276.69 OK
r-release-osx-x86_64 1.2.1 NOTE
r-release-windows-ix86+x86_64 1.2.1 288.00 256.00 544.00 NOTE
r-oldrel-osx-x86_64 1.2.1 NOTE
r-oldrel-windows-ix86+x86_64 1.2.1 286.00 216.00 502.00 OK

Check Details

Version: 1.2.1
Check: installed package size
Result: NOTE
     installed size is 9.9Mb
     sub-directories of 1Mb or more:
     doc 1.8Mb
     libs 7.0Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-ix86+x86_64, r-release-osx-x86_64, r-release-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 1.2.1
Check: examples
Result: ERROR
    Running examples in ‘NetRep-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: permutationTest
    > ### Title: Permutation test P-values for module preservation statistics
    > ### Aliases: permutationTest permutation permuted
    > ### Keywords: internal
    >
    > ### ** Examples
    >
    > data("NetRep")
    >
    > # Set up input lists for each input matrix type across datasets. The list
    > # elements can have any names, so long as they are consistent between the
    > # inputs.
    > network_list <- list(discovery=discovery_network, test=test_network)
    > data_list <- list(discovery=discovery_data, test=test_data)
    > correlation_list <- list(discovery=discovery_correlation, test=test_correlation)
    > labels_list <- list(discovery=module_labels)
    >
    > # Note that we recommend running at least 10,000 permutations to make sure
    > # that the null distributions are representative.
    >
    > preservation <- modulePreservation(
    + network=network_list, data=data_list, correlation=correlation_list,
    + moduleAssignments=labels_list, nPerm=1000, discovery="discovery",
    + test="test"
    + )
    [2020-05-17 09:22:48 BST] Validating user input...
    [2020-05-17 09:22:48 BST] Checking matrices for problems...
    [2020-05-17 09:22:48 BST] Input ok!
    [2020-05-17 09:22:48 BST] Calculating preservation of network subsets from
     dataset "discovery" in dataset "test".
    [2020-05-17 09:22:48 BST] Pre-computing network properties in dataset
     "discovery"...
    [2020-05-17 09:22:49 BST] Calculating observed test statistics...
    [2020-05-17 09:22:49 BST] Generating null distributions from 1000
     permutations using 15 threads...
    
    
     6% completed.
     57% completed.Error in PermutationProcedure(discProps, dataEnv$matrix, correlationEnv$matrix, :
     BLAS/LAPACK routine 'DORGQRNo transposeCo' gave error code -3
    Calls: modulePreservation ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
    Error: no more error handlers available (recursive errors?); invoking 'abort' restart
    Execution halted
    
     *** caught segfault ***
    address d144a1f6, cause 'memory not mapped'
    An irrecoverable exception occurred. R is aborting now ...
Flavor: r-patched-solaris-x86

Version: 1.2.1
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘NetRep.Rmd’ using rmarkdown
    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.
    
     *** caught segfault ***
    address 1792c628, cause 'memory not mapped'
    Warning: stack imbalance in '[[', 84 then 85
    Warning: stack imbalance in 'lapply', 74 then 95
Flavor: r-patched-solaris-x86