Hector Roux de Bezieux
| Snapshot Date: 2024-06-09 14:00 -0400 (Sun, 09 Jun 2024) |
| git_url: https://git.bioconductor.org/packages/condiments |
| git_branch: devel |
| git_last_commit: 38d7d61 |
| git_last_commit_date: 2024-04-30 11:32:42 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-06-11 15:40 -0400 (Tue, 11 Jun 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4679 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" | 4414 |
| merida1 | macOS 12.7.4 Monterey | x86_64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4441 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" | 4394 |
| 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 | ||||
| Package 414/2239 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| condiments 1.13.0 (landing page) Hector Roux de Bezieux
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.4 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
|
To the developers/maintainers of the condiments package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/condiments.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: condiments |
| Version: 1.13.0 |
| Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:condiments.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings condiments_1.13.0.tar.gz |
| StartedAt: 2024-06-10 01:14:33 -0400 (Mon, 10 Jun 2024) |
| EndedAt: 2024-06-10 01:25:30 -0400 (Mon, 10 Jun 2024) |
| EllapsedTime: 656.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: condiments.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:condiments.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings condiments_1.13.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/condiments.Rcheck'
* using R version 4.4.0 RC (2024-04-16 r86468 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 13.2.0
GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'condiments/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'condiments' version '1.13.0'
* 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 whether package 'condiments' 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 code 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 ... NOTE
.condition_sling: no visible binding for global variable '.'
.condition_sling : <anonymous>: no visible binding for global variable
'.'
.distinct_inputs: no visible binding for global variable 'Samples'
.distinct_inputs: no visible binding for global variable '.'
.fateSelectionTest: no visible binding for global variable 'pair'
.fateSelectionTest: no visible binding for global variable 'statistic'
.fateSelectionTest: no visible binding for global variable 'p.value'
.multiple_samples: no visible binding for global variable 'p.value'
.progressionTest: no visible binding for global variable 'lineage'
.progressionTest: no visible binding for global variable 'statistic'
.progressionTest: no visible binding for global variable 'p.value'
.topologyTest_multipleSamples: no visible binding for global variable
'p.value'
fateSelectionTest_multipleSamples,SlingshotDataSet: no visible binding
for global variable 'condition'
progressionTest_multipleSamples,SlingshotDataSet: no visible binding
for global variable 'condition'
Undefined global functions or variables:
. Samples condition lineage p.value pair statistic
* 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 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 ... 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
'F:/biocbuild/bbs-3.20-bioc/meat/condiments.Rcheck/00check.log'
for details.
condiments.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL condiments ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library' * installing *source* package 'condiments' ... ** using staged installation ** R ** data ** 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 (condiments)
condiments.Rcheck/tests/testthat.Rout
R version 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64
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(condiments)
> library(testthat)
> test_check("condiments")
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 2 unique complexity parameters in default grid. Truncating the grid to 2 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 2 unique complexity parameters in default grid. Truncating the grid to 2 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
note: only 1 unique complexity parameters in default grid. Truncating the grid to 1 .
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 112 ]
>
> proc.time()
user system elapsed
270.14 75.85 346.95
condiments.Rcheck/condiments-Ex.timings
| name | user | system | elapsed | |
| create_differential_topology | 0.02 | 0.00 | 0.02 | |
| differentiationTest | 2.24 | 0.12 | 2.39 | |
| fateSelectionTest | 1.33 | 0.16 | 1.50 | |
| fateSelectionTest_multipleSamples | 2.20 | 0.08 | 2.28 | |
| imbalance_score | 0.22 | 0.04 | 0.27 | |
| merge_sds | 0.43 | 0.02 | 0.43 | |
| nLineages | 0.20 | 0.00 | 0.22 | |
| progressionTest | 0.34 | 0.00 | 0.38 | |
| progressionTest_multipleSamples | 0.38 | 0.05 | 0.42 | |
| slingshot_conditions | 0.58 | 0.04 | 0.62 | |
| topologyTest | 3.46 | 0.08 | 3.55 | |
| topologyTest_multipleSamples | 4.13 | 0.03 | 4.16 | |
| weights_from_pst | 0.30 | 0.02 | 0.31 | |