Koki Tsuyuzaki
| Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019) |
| URL: https://git.bioconductor.org/packages/scTensor |
| Branch: master |
| Last Commit: feb6b7d |
| Last Changed Date: 2019-01-02 04:07:13 -0400 (Wed, 02 Jan 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-04-09 11:52:21 -0400 (Tue, 09 Apr 2019).
| Package 1451/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| scTensor 0.99.22 Koki Tsuyuzaki
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ WARNINGS ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
| Package: scTensor |
| Version: 0.99.22 |
| Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:scTensor.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings scTensor_0.99.22.tar.gz |
| StartedAt: 2019-04-09 03:31:47 -0400 (Tue, 09 Apr 2019) |
| EndedAt: 2019-04-09 03:39:16 -0400 (Tue, 09 Apr 2019) |
| EllapsedTime: 449.7 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: scTensor.Rcheck |
| Warnings: 1 |
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### Running command:
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### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:scTensor.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings scTensor_0.99.22.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/scTensor.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 ‘scTensor/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘scTensor’ version ‘0.99.22’
* 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 ‘scTensor’ 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 ... NOTE
.simulateDropoutCounts: no visible binding for global variable '.v'
.simulateDropoutCounts: no visible binding for global variable '.m'
Undefined global functions or variables:
.m .v
* 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 ... WARNING
Output for data("m", package = "scTensor"):
No dataset created in 'envir'
Output for data("v", package = "scTensor"):
No dataset created in 'envir'
* 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 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 WARNING, 1 NOTE
See
‘/home/biocbuild/bbs-3.9-bioc/meat/scTensor.Rcheck/00check.log’
for details.
scTensor.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL scTensor ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘scTensor’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for 'show' in package 'scTensor' ** help *** installing help indices ** 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 (scTensor)
scTensor.Rcheck/tests/testthat.Rout
R Under development (unstable) (2019-03-18 r76245) -- "Unsuffered Consequences"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (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("scTensor")
>
> options(testthat.use_colours = FALSE)
>
> test_file("testthat/test_GermMale.R")
✔ | OK F W S | Context
⠏ | 0 | GermMale
⠋ | 0 1 | GermMale
✖ | 0 1 | GermMale
────────────────────────────────────────────────────────────────────────────────
test_GermMale.R:5: failure: (unknown)
dim(GermMale) not equivalent to c(2547, 852).
1/2 mismatches
[1] 242 - 2547 == -2305
────────────────────────────────────────────────────────────────────────────────
══ Results ═════════════════════════════════════════════════════════════════════
OK: 0
Failed: 1
Warnings: 0
Skipped: 0
> test_file("testthat/test_tsneGermMale.R")
✔ | OK F W S | Context
⠏ | 0 | tsneGermMale
⠋ | 1 | tsneGermMale
✔ | 1 | tsneGermMale
══ Results ═════════════════════════════════════════════════════════════════════
OK: 1
Failed: 0
Warnings: 0
Skipped: 0
> test_file("testthat/test_labelGermMale.R")
✔ | OK F W S | Context
⠏ | 0 | labelGermMale
⠋ | 1 | labelGermMale
✔ | 1 | labelGermMale
══ Results ═════════════════════════════════════════════════════════════════════
OK: 1
Failed: 0
Warnings: 0
Skipped: 0
> test_file("testthat/test_cellCellFunctions.R")
✔ | OK F W S | Context
⠏ | 0 | cellCellFunctions
⠋ | 1 | cellCellFunctions
⠙ | 2 | cellCellFunctions
⠹ | 3 | cellCellFunctions
⠸ | 3 1 | cellCellFunctions
⠼ | 3 2 | cellCellFunctions
⠴ | 3 3 | cellCellFunctions
✖ | 3 3 | cellCellFunctions [0.7 s]
────────────────────────────────────────────────────────────────────────────────
test_cellCellFunctions.R:21: failure: (unknown)
is.null(metadata(sce)$lrbase) isn't false.
test_cellCellFunctions.R:22: failure: (unknown)
is.null(metadata(sce)$color) isn't false.
test_cellCellFunctions.R:23: failure: (unknown)
is.null(metadata(sce)$label) isn't false.
────────────────────────────────────────────────────────────────────────────────
══ Results ═════════════════════════════════════════════════════════════════════
Duration: 0.7 s
OK: 3
Failed: 3
Warnings: 0
Skipped: 0
> test_file("testthat/test_CCSParamsFunctions.R")
✔ | OK F W S | Context
⠋ | 1 | 0
⠙ | 2 | 0
⠹ | 3 | 0
⠸ | 4 | 0
⠼ | 5 | 0
⠴ | 6 | 0
⠦ | 7 | 0
⠧ | 8 | 0
⠇ | 9 | 0
⠏ | 10 | 0
⠋ | 11 | 0
══ Results ═════════════════════════════════════════════════════════════════════
OK: 11
Failed: 0
Warnings: 0
Skipped: 0
>
> proc.time()
user system elapsed
22.476 0.694 23.270
scTensor.Rcheck/scTensor-Ex.timings
| name | user | system | elapsed | |
| GermMale | 0.012 | 0.000 | 0.012 | |
| cellCellDecomp | 0.002 | 0.000 | 0.002 | |
| cellCellRanks | 0 | 0 | 0 | |
| cellCellReport | 0.001 | 0.000 | 0.001 | |
| cellCellSetting | 0.001 | 0.000 | 0.001 | |
| cellCellSimulate | 0.001 | 0.000 | 0.001 | |
| getParam | 0.001 | 0.000 | 0.001 | |
| labelGermMale | 0.001 | 0.000 | 0.001 | |
| m | 0.002 | 0.000 | 0.002 | |
| newCCSParams | 0 | 0 | 0 | |
| scTensor-package | 0.002 | 0.000 | 0.002 | |
| setParam | 0.001 | 0.000 | 0.002 | |
| tsneGermMale | 0.001 | 0.000 | 0.001 | |
| v | 0.000 | 0.001 | 0.002 | |