Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-04-09 11:50:58 -0400 (Tue, 09 Apr 2019).
Package 1480/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
SIAMCAT 1.3.1 Konrad Zych
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: SIAMCAT |
Version: 1.3.1 |
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:SIAMCAT.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings SIAMCAT_1.3.1.tar.gz |
StartedAt: 2019-04-09 03:38:11 -0400 (Tue, 09 Apr 2019) |
EndedAt: 2019-04-09 03:41:36 -0400 (Tue, 09 Apr 2019) |
EllapsedTime: 205.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: SIAMCAT.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:SIAMCAT.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings SIAMCAT_1.3.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/SIAMCAT.Rcheck’ * using R Under development (unstable) (2019-03-18 r76245) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘SIAMCAT/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘SIAMCAT’ version ‘1.3.1’ * 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 ‘SIAMCAT’ can be installed ... OK * checking installed package size ... OK * 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 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 ... OK * 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 ... NOTE Note: found 10 marked UTF-8 strings * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed train.model 22.281 0.028 22.416 evaluate.predictions 13.785 0.031 13.836 * 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: 1 NOTE See ‘/home/biocbuild/bbs-3.9-bioc/meat/SIAMCAT.Rcheck/00check.log’ for details.
SIAMCAT.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL SIAMCAT ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘SIAMCAT’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SIAMCAT)
SIAMCAT.Rcheck/SIAMCAT-Ex.timings
name | user | system | elapsed | |
accessSlot | 0.046 | 0.000 | 0.052 | |
add.meta.pred | 0.248 | 0.004 | 0.252 | |
assign-associations | 0.574 | 0.000 | 0.575 | |
assign-data_split | 0.045 | 0.000 | 0.045 | |
assign-eval_data | 0.043 | 0.004 | 0.047 | |
assign-filt_feat | 0.036 | 0.012 | 0.047 | |
assign-label | 0.028 | 0.012 | 0.040 | |
assign-meta | 0.061 | 0.000 | 0.061 | |
assign-model_list | 0.038 | 0.000 | 0.038 | |
assign-norm_feat | 0.039 | 0.000 | 0.039 | |
assign-orig_feat | 0.041 | 0.000 | 0.041 | |
assign-physeq | 0.049 | 0.000 | 0.049 | |
assign-pred_matrix | 0.045 | 0.000 | 0.045 | |
assoc_param-methods | 0.021 | 0.000 | 0.022 | |
associations-methods | 0.031 | 0.000 | 0.031 | |
check.associations | 0.967 | 0.000 | 0.973 | |
check.confounders | 1.034 | 0.028 | 1.074 | |
create.data.split | 0.064 | 0.016 | 0.080 | |
create.label | 0.009 | 0.000 | 0.009 | |
data_split-methods | 0.038 | 0.004 | 0.045 | |
eval_data-methods | 0.030 | 0.008 | 0.038 | |
evaluate.predictions | 13.785 | 0.031 | 13.836 | |
feature_type-methods | 0.021 | 0.000 | 0.021 | |
feature_weights-methods | 0.029 | 0.004 | 0.034 | |
filt_feat-methods | 0.089 | 0.004 | 0.093 | |
filt_params-methods | 0.016 | 0.000 | 0.015 | |
filter.features | 0.044 | 0.000 | 0.044 | |
filter.label | 0.029 | 0.000 | 0.029 | |
get.filt_feat.matrix | 0.014 | 0.000 | 0.014 | |
get.norm_feat.matrix | 0.014 | 0.000 | 0.014 | |
get.orig_feat.matrix | 0.015 | 0.000 | 0.015 | |
label-methods | 0.02 | 0.00 | 0.02 | |
make.predictions | 0.254 | 0.004 | 0.257 | |
meta-methods | 0.030 | 0.004 | 0.034 | |
model.evaluation.plot | 0.033 | 0.000 | 0.034 | |
model.interpretation.plot | 0.106 | 0.000 | 0.105 | |
model_list-methods | 0.032 | 0.000 | 0.033 | |
model_type-methods | 0.022 | 0.000 | 0.022 | |
models-methods | 0.045 | 0.000 | 0.044 | |
norm_feat-methods | 0.090 | 0.016 | 0.107 | |
norm_params-methods | 0.023 | 0.000 | 0.022 | |
normalize.features | 0.087 | 0.004 | 0.091 | |
orig_feat-methods | 0.187 | 0.020 | 0.207 | |
physeq-methods | 0.017 | 0.000 | 0.016 | |
pred_matrix-methods | 0.023 | 0.004 | 0.026 | |
read.label | 0.010 | 0.000 | 0.015 | |
read.lefse | 0.824 | 0.012 | 0.849 | |
select.samples | 0.211 | 0.000 | 0.211 | |
siamcat | 0.48 | 0.00 | 0.48 | |
siamcat.to.lefse | 0.087 | 0.000 | 0.087 | |
siamcat.to.maaslin | 0.056 | 0.000 | 0.056 | |
summarize.features | 0.641 | 0.012 | 0.662 | |
train.model | 22.281 | 0.028 | 22.416 | |
validate.data | 0.075 | 0.000 | 0.092 | |
weight_matrix-methods | 0.033 | 0.000 | 0.033 | |