Back to Multiple platform build/check report for BioC 3.6 |
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This page was generated on 2018-04-12 13:46:10 -0400 (Thu, 12 Apr 2018).
Package 1413/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
transcriptogramer 1.0.0 Diego Morais
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | |||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK | |||||||
veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | [ OK ] | OK |
Package: transcriptogramer |
Version: 1.0.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings transcriptogramer_1.0.0.tar.gz |
StartedAt: 2018-04-12 10:26:09 -0400 (Thu, 12 Apr 2018) |
EndedAt: 2018-04-12 10:29:10 -0400 (Thu, 12 Apr 2018) |
EllapsedTime: 180.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: transcriptogramer.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings transcriptogramer_1.0.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/transcriptogramer.Rcheck’ * using R version 3.4.4 (2018-03-15) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘transcriptogramer/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘transcriptogramer’ version ‘1.0.0’ * 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 hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘transcriptogramer’ can be installed ... OK * checking installed package size ... NOTE installed size is 5.6Mb sub-directories of 1Mb or more: data 4.5Mb * 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 ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... 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 ... NOTE check_algorithm: no visible binding for global variable ‘name’ check_ontology: no visible binding for global variable ‘name’ check_statistic: no visible binding for global variable ‘name’ Undefined global functions or variables: name * checking Rd files ... 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 ... OK * checking data for ASCII and uncompressed saves ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTests.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/Users/biocbuild/bbs-3.6-bioc/meat/transcriptogramer.Rcheck/00check.log’ for details.
transcriptogramer.Rcheck/00install.out
* installing *source* package ‘transcriptogramer’ ... ** R ** data *** moving datasets to lazyload DB ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (transcriptogramer)
transcriptogramer.Rcheck/tests/runTests.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On" Copyright (C) 2018 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin15.6.0 (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > BiocGenerics:::testPackage("transcriptogramer") preprocessing the input data... step 1 of 1 calculating node properties... step 1 of 2 ** this may take some time... applying sliding window and mounting resulting data... step 2 of 2 ** this may take some time... done! mapping identifiers to ENSEMBL Peptide ID... step 1 of 2 calculating average over all identifiers related to the same protein... step 2 of 2 done! applying sliding window and mounting resulting data... step 1 of 1 done! RUNIT TEST PROTOCOL -- Thu Apr 12 10:29:03 2018 *********************************************** Number of test functions: 3 Number of errors: 0 Number of failures: 0 1 Test Suite : transcriptogramer RUnit Tests - 3 test functions, 0 errors, 0 failures Number of test functions: 3 Number of errors: 0 Number of failures: 0 > > proc.time() user system elapsed 8.729 0.451 41.465
transcriptogramer.Rcheck/transcriptogramer-Ex.timings
name | user | system | elapsed | |
DE-method | 0.684 | 0.046 | 0.737 | |
DEsymbols | 0.006 | 0.001 | 0.007 | |
GPL570 | 0.034 | 0.004 | 0.037 | |
GSE9988 | 1.584 | 0.368 | 1.961 | |
Hs700 | 0.257 | 0.068 | 0.331 | |
Hs800 | 0.204 | 0.054 | 0.269 | |
Hs900 | 0.187 | 0.050 | 0.243 | |
HsBPTerms | 3.149 | 0.436 | 3.632 | |
Mm700 | 0.335 | 0.077 | 0.418 | |
Mm800 | 0.240 | 0.067 | 0.309 | |
Mm900 | 0.263 | 0.073 | 0.345 | |
Rn700 | 0.286 | 0.084 | 0.376 | |
Rn800 | 0.262 | 0.079 | 0.341 | |
Rn900 | 0.210 | 0.061 | 0.272 | |
Sc700 | 0.070 | 0.025 | 0.100 | |
Sc800 | 0.064 | 0.024 | 0.089 | |
Sc900 | 0.045 | 0.017 | 0.065 | |
association | 0.193 | 0.018 | 0.214 | |
clusterEnrichment-method | 0.289 | 0.014 | 0.307 | |
clusterVisualization-method | 0.035 | 0.011 | 0.048 | |
connectivityProperties-method | 0.047 | 0.005 | 0.052 | |
differentiallyExpressed-method | 0.051 | 0.003 | 0.053 | |
orderingProperties-method | 0.048 | 0.011 | 0.059 | |
radius-method | 0.052 | 0.003 | 0.056 | |
transcriptogramPreprocess | 0.033 | 0.001 | 0.034 | |
transcriptogramStep1-method | 0.043 | 0.005 | 0.050 | |
transcriptogramStep2-method | 0.044 | 0.000 | 0.044 | |