Last updated on 2021-04-21 11:53:37 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.2.4 | 168.75 | 154.34 | 323.09 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.2.4 | 112.35 | 116.52 | 228.87 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.2.4 | 423.72 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 1.2.4 | 396.83 | OK | |||
| r-devel-windows-ix86+x86_64 | 1.2.4 | 380.00 | 192.00 | 572.00 | OK | |
| r-devel-windows-x86_64-gcc10-UCRT | 1.2.4 | OK | ||||
| r-patched-linux-x86_64 | 1.2.4 | 137.35 | 147.65 | 285.00 | OK | |
| r-patched-solaris-x86 | 1.2.4 | 283.60 | ERROR | |||
| r-release-linux-x86_64 | 1.2.4 | 134.50 | 150.04 | 284.54 | OK | |
| r-release-macos-x86_64 | 1.2.4 | NOTE | ||||
| r-release-windows-ix86+x86_64 | 1.2.4 | 383.00 | 246.00 | 629.00 | OK | |
| r-oldrel-macos-x86_64 | 1.2.4 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 1.2.4 | 280.00 | 230.00 | 510.00 | OK |
Version: 1.2.4
Check: installed package size
Result: NOTE
installed size is 7.9Mb
sub-directories of 1Mb or more:
doc 1.4Mb
libs 5.5Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-release-macos-x86_64, r-oldrel-macos-x86_64
Version: 1.2.4
Check: examples
Result: ERROR
Running examples in ‘NetRep-Ex.R’ failed
The error most likely occurred in:
> ### Name: combineAnalyses
> ### Title: Combine results of multiple permutation procedures
> ### Aliases: combineAnalyses
> ### 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)
>
> pres1 <- modulePreservation(
+ network=network_list, data=data_list, correlation=correlation_list,
+ moduleAssignments=labels_list, nPerm=1000, discovery="discovery",
+ test="test", nThreads=2
+ )
[2021-04-02 19:58:20 BST] Validating user input...
[2021-04-02 19:58:20 BST] Checking matrices for problems...
[2021-04-02 19:58:21 BST] Input ok!
[2021-04-02 19:58:21 BST] Calculating preservation of network subsets from
dataset "discovery" in dataset "test".
[2021-04-02 19:58:21 BST] Pre-computing network properties in dataset
"discovery"...
[2021-04-02 19:58:21 BST] Calculating observed test statistics...
[2021-04-02 19:58:21 BST] Generating null distributions from 1000
permutations using 2 threads...
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[2021-04-02 19:58:25 BST] Calculating P-values...
[2021-04-02 19:58:25 BST] Collating results...
[2021-04-02 19:58:25 BST] Done!
>
> pres2 <- modulePreservation(
+ network=network_list, data=data_list, correlation=correlation_list,
+ moduleAssignments=labels_list, nPerm=1000, discovery="discovery",
+ test="test", nThreads=2
+ )
[2021-04-02 19:58:25 BST] Validating user input...
[2021-04-02 19:58:25 BST] Checking matrices for problems...
[2021-04-02 19:58:25 BST] Input ok!
[2021-04-02 19:58:26 BST] Calculating preservation of network subsets from
dataset "discovery" in dataset "test".
[2021-04-02 19:58:26 BST] Pre-computing network properties in dataset
"discovery"...
[2021-04-02 19:58:26 BST] Calculating observed test statistics...
[2021-04-02 19:58:26 BST] Generating null distributions from 1000
permutations using 2 threads...
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*** caught segfault ***
address 1e948396, cause 'memory not mapped'
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Flavor: r-patched-solaris-x86
Version: 1.2.4
Check: tests
Result: ERROR
Running ‘testthat.R’ [0m/180m]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(NetRep)
>
> test_check("NetRep")
*** caught segfault ***
address 63ea4a8c, cause 'memory not mapped'
Flavor: r-patched-solaris-x86
Version: 1.2.4
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.
Quitting from lines 286-289 (NetRep.Rmd)
Error: processing vignette 'NetRep.Rmd' failed with diagnostics:
dim(X) must have a positive length
--- failed re-building ‘NetRep.Rmd’
SUMMARY: processing the following file failed:
‘NetRep.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-solaris-x86