Gavin Rhys Lloyd
| Snapshot Date: 2022-03-17 13:55:23 -0400 (Thu, 17 Mar 2022) |
| git_url: https://git.bioconductor.org/packages/struct |
| git_branch: master |
| git_last_commit: 295bef2 |
| git_last_commit_date: 2022-03-02 10:39:21 -0400 (Wed, 02 Mar 2022) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-03-18 11:08:48 -0400 (Fri, 18 Mar 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
|
To the developers/maintainers of the struct package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/struct.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1900/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| struct 1.7.1 (landing page) Gavin Rhys Lloyd
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | OK | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: struct |
| Version: 1.7.1 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:struct.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings struct_1.7.1.tar.gz |
| StartedAt: 2022-03-17 20:24:24 -0400 (Thu, 17 Mar 2022) |
| EndedAt: 2022-03-17 20:26:41 -0400 (Thu, 17 Mar 2022) |
| EllapsedTime: 136.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: struct.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:struct.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings struct_1.7.1.tar.gz ### ############################################################################## ############################################################################## * using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/struct.Rcheck' * using R Under development (unstable) (2021-11-21 r81221) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'struct/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'struct' version '1.7.1' * 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 whether package 'struct' 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 files in 'vignettes' ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'testthat.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: OK
struct.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL struct
###
##############################################################################
##############################################################################
* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'struct' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'struct'
finding HTML links ... done
as.DatasetExperiment-SummarizedExperiment-method
html
as.DatasetExperiment html
as.SummarizedExperiment-DatasetExperiment-method
html
as.SummarizedExperiment html
as.code html
as_data_frame html
autocompletion html
c-ontology_list-method html
cash-ontology_list-method html
cash-ontology_term-method html
cash-set-struct_class-method html
cash-struct_class-method html
chart html
chart_example html
chart_names html
chart_plot html
citations html
entity html
entity_stato html
enum html
enum_stato html
example_iterator html
example_model html
export_data html
iris_DatasetExperiment html
is_output html
is_param html
iterator html
libraries html
metric html
model html
model_apply html
model_reverse html
model_seq html
models html
new_struct html
ontology html
optimiser html
output_ids html
output_list html
output_name html
output_obj html
output_value html
param_ids html
param_list html
param_name html
param_obj html
param_value html
predict html
predicted html
predicted_name html
preprocessing html
resampler html
result html
result_name html
seq_in html
set_obj_method html
set_obj_show html
set_struct_obj html
stato html
struct html
struct_DatasetExperiment html
struct_class-class html
struct_class html
struct_template html
test_metric html
train html
** 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 (struct)
Making 'packages.html' ... done
struct.Rcheck/tests/testthat.Rout
R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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.
> library(testthat)
> library(struct)
> library(SummarizedExperiment)
Loading required package: MatrixGenerics
Loading required package: matrixStats
Attaching package: 'MatrixGenerics'
The following objects are masked from 'package:matrixStats':
colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
colWeightedMeans, colWeightedMedians, colWeightedSds,
colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
rowWeightedSds, rowWeightedVars
Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
tapply, union, unique, unsplit, which.max, which.min
Loading required package: S4Vectors
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
I, expand.grid, unname
Loading required package: IRanges
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: 'Biobase'
The following object is masked from 'package:MatrixGenerics':
rowMedians
The following objects are masked from 'package:matrixStats':
anyMissing, rowMedians
>
> test_check("struct")
[ FAIL 0 | WARN 1 | SKIP 0 | PASS 150 ]
[ FAIL 0 | WARN 1 | SKIP 0 | PASS 150 ]
>
>
>
> proc.time()
user system elapsed
7.35 0.84 13.64
struct.Rcheck/struct-Ex.timings
| name | user | system | elapsed | |
| as.code | 0.03 | 0.02 | 0.05 | |
| cash-ontology_list-method | 0 | 0 | 0 | |
| cash-ontology_term-method | 0 | 0 | 0 | |
| cash-set-struct_class-method | 0 | 0 | 0 | |
| cash-struct_class-method | 0.08 | 0.00 | 0.08 | |
| chart | 0 | 0 | 0 | |
| chart_example | 0.01 | 0.00 | 0.02 | |
| chart_names | 0 | 0 | 0 | |
| chart_plot | 0.05 | 0.00 | 0.04 | |
| citations | 0.09 | 0.00 | 0.10 | |
| entity | 0 | 0 | 0 | |
| entity_stato | 0 | 0 | 0 | |
| enum | 0 | 0 | 0 | |
| enum_stato | 0 | 0 | 0 | |
| example_iterator | 0.02 | 0.01 | 0.03 | |
| example_model | 0.11 | 0.00 | 0.11 | |
| export_data | 0 | 0 | 0 | |
| iris_DatasetExperiment | 0.00 | 0.02 | 0.01 | |
| is_output | 0 | 0 | 0 | |
| is_param | 0.01 | 0.00 | 0.02 | |
| iterator | 0.08 | 0.01 | 0.09 | |
| libraries | 0 | 0 | 0 | |
| metric | 0 | 0 | 0 | |
| model | 0.5 | 0.0 | 0.5 | |
| model_apply | 0.05 | 0.00 | 0.05 | |
| model_reverse | 0.03 | 0.00 | 0.03 | |
| model_seq | 0.33 | 0.03 | 0.36 | |
| models | 0.01 | 0.00 | 0.02 | |
| new_struct | 0 | 0 | 0 | |
| ontology | 0 | 0 | 0 | |
| optimiser | 0 | 0 | 0 | |
| output_ids | 0.00 | 0.02 | 0.01 | |
| output_list | 0.03 | 0.00 | 0.03 | |
| output_name | 0 | 0 | 0 | |
| output_obj | 0 | 0 | 0 | |
| output_value | 0.07 | 0.00 | 0.06 | |
| param_ids | 0 | 0 | 0 | |
| param_list | 0.01 | 0.00 | 0.02 | |
| param_name | 0 | 0 | 0 | |
| param_obj | 0 | 0 | 0 | |
| param_value | 0.00 | 0.01 | 0.02 | |
| predict | 0.03 | 0.00 | 0.03 | |
| predicted | 0.10 | 0.00 | 0.09 | |
| predicted_name | 0 | 0 | 0 | |
| preprocessing | 0.01 | 0.00 | 0.02 | |
| resampler | 0 | 0 | 0 | |
| result | 0.02 | 0.00 | 0.01 | |
| result_name | 0 | 0 | 0 | |
| seq_in | 0 | 0 | 0 | |
| set_obj_method | 0.01 | 0.00 | 0.02 | |
| set_obj_show | 0.02 | 0.00 | 0.01 | |
| stato | 0.25 | 0.02 | 0.27 | |
| struct_class-class | 0 | 0 | 0 | |
| struct_template | 0 | 0 | 0 | |
| test_metric | 0 | 0 | 0 | |
| train | 0.05 | 0.00 | 0.05 | |