Koki Tsuyuzaki
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/scTGIF |
| Branch: RELEASE_3_11 |
| Last Commit: 2f7e6a2 |
| Last Changed Date: 2020-07-16 03:31:38 -0400 (Thu, 16 Jul 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:57:47 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE scTGIF PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1615/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| scTGIF 1.2.2 Koki Tsuyuzaki
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | |||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |
| Package: scTGIF |
| Version: 1.2.2 |
| Command: C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:scTGIF.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings scTGIF_1.2.2.tar.gz |
| StartedAt: 2020-10-17 08:06:36 -0400 (Sat, 17 Oct 2020) |
| EndedAt: 2020-10-17 08:19:40 -0400 (Sat, 17 Oct 2020) |
| EllapsedTime: 783.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: scTGIF.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:scTGIF.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings scTGIF_1.2.2.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/scTGIF.Rcheck' * using R version 4.0.3 (2020-10-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'scTGIF/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'scTGIF' version '1.2.2' * 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 'scTGIF' 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 * loading checks for arch 'i386' ** 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 * loading checks for arch 'x64' ** 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 ... NOTE Unexported object imported by a ':::' call: 'schex:::.make_hexbin_function' See the note in ?`:::` about the use of this operator. * 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 ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK ** running examples for arch 'x64' ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'testthat.R' OK ** running tests for arch 'x64' ... 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 NOTE See 'C:/Users/biocbuild/bbs-3.11-bioc/meat/scTGIF.Rcheck/00check.log' for details.
scTGIF.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/scTGIF_1.2.2.tar.gz && rm -rf scTGIF.buildbin-libdir && mkdir scTGIF.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=scTGIF.buildbin-libdir scTGIF_1.2.2.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL scTGIF_1.2.2.zip && rm scTGIF_1.2.2.tar.gz scTGIF_1.2.2.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 2468k 100 2468k 0 0 21.6M 0 --:--:-- --:--:-- --:--:-- 22.9M
install for i386
* installing *source* package 'scTGIF' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'scTGIF'
finding HTML links ... done
DistalLungEpithelium html
calcTGIF html
cellMarkerToGmt html
convertRowID html
label.DistalLungEpithelium html
pca.DistalLungEpithelium html
reportTGIF html
scTGIF-package html
settingTGIF 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
install for x64
* installing *source* package 'scTGIF' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'scTGIF' as scTGIF_1.2.2.zip
* DONE (scTGIF)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'scTGIF' successfully unpacked and MD5 sums checked
|
scTGIF.Rcheck/tests_i386/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-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("scTGIF")
>
> options(testthat.use_colours = FALSE)
>
> test_file("testthat/test_DistalLungEpithelium.R")
v | OK F W S | Context
/ | 0 | DistalLungEpithelium
v | 5 | DistalLungEpithelium
== Results =====================================================================
Duration: 0.2 s
OK: 5
Failed: 0
Warnings: 0
Skipped: 0
> test_file("testthat/test_TGIFFunctions.R")
v | OK F W S | Context
/ | 0 | TGIFFunctions
- | 1 | TGIFFunctions
v | 3 | TGIFFunctions [1.5 s]
== Results =====================================================================
Duration: 1.5 s
OK: 3
Failed: 0
Warnings: 0
Skipped: 0
OLE - cool code.
> test_file("testthat/test_convertRowID.R")
v | OK F W S | Context
/ | 0 | convertRowID
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x | 14 6 6 | convertRowID [0.1 s]
--------------------------------------------------------------------------------
test_convertRowID.R:48: failure: (unknown)
identical(rownames(out$output), c("3", "2", "4", "7")) isn't true.
test_convertRowID.R:51: failure: (unknown)
identical(rownames(out$output), c("3", "2", "4", "7")) isn't true.
test_convertRowID.R:53: warning: (unknown)
number of items to replace is not a multiple of replacement length
test_convertRowID.R:54: failure: (unknown)
identical(rownames(out$output), c("3", "2", "4", "7")) isn't true.
test_convertRowID.R:56: warning: (unknown)
number of items to replace is not a multiple of replacement length
test_convertRowID.R:59: warning: (unknown)
number of items to replace is not a multiple of replacement length
test_convertRowID.R:112: failure: (unknown)
identical(rownames(out$output), c("5", "2", "7")) isn't true.
test_convertRowID.R:115: failure: (unknown)
identical(rownames(out$output), c("5", "2", "7")) isn't true.
test_convertRowID.R:117: warning: (unknown)
number of items to replace is not a multiple of replacement length
test_convertRowID.R:118: failure: (unknown)
identical(rownames(out$output), c("5", "2", "7")) isn't true.
test_convertRowID.R:120: warning: (unknown)
number of items to replace is not a multiple of replacement length
test_convertRowID.R:123: warning: (unknown)
number of items to replace is not a multiple of replacement length
--------------------------------------------------------------------------------
== Results =====================================================================
Duration: 0.1 s
OK: 14
Failed: 6
Warnings: 6
Skipped: 0
Don't worry, you'll get it.
> test_file("testthat/test_cellMarkerToGmt.R")
v | OK F W S | Context
/ | 0 | cellMarkerToGmt
- | 0 1 | cellMarkerToGmt
v | 16 4 | cellMarkerToGmt [0.2 s]
--------------------------------------------------------------------------------
test_cellMarkerToGmt.R:134: warning: (unknown)
1 record(s) contain duplicate ids: Meniscus
test_cellMarkerToGmt.R:135: warning: (unknown)
1 record(s) contain duplicate ids: Meniscus
test_cellMarkerToGmt.R:140: warning: (unknown)
1 record(s) contain duplicate ids: Pancreas
test_cellMarkerToGmt.R:141: warning: (unknown)
1 record(s) contain duplicate ids: Pancreas
--------------------------------------------------------------------------------
== Results =====================================================================
Duration: 0.2 s
OK: 16
Failed: 0
Warnings: 4
Skipped: 0
>
> proc.time()
user system elapsed
13.87 1.42 29.59
|
scTGIF.Rcheck/tests_x64/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 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("scTGIF")
>
> options(testthat.use_colours = FALSE)
>
> test_file("testthat/test_DistalLungEpithelium.R")
v | OK F W S | Context
/ | 0 | DistalLungEpithelium
v | 5 | DistalLungEpithelium
== Results =====================================================================
Duration: 0.2 s
OK: 5
Failed: 0
Warnings: 0
Skipped: 0
> test_file("testthat/test_TGIFFunctions.R")
v | OK F W S | Context
/ | 0 | TGIFFunctions
- | 1 | TGIFFunctions
v | 3 | TGIFFunctions [0.7 s]
== Results =====================================================================
Duration: 0.7 s
OK: 3
Failed: 0
Warnings: 0
Skipped: 0
> test_file("testthat/test_convertRowID.R")
v | OK F W S | Context
/ | 0 | convertRowID
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\ | 12 6 4 | convertRowID
x | 14 6 6 | convertRowID [0.1 s]
--------------------------------------------------------------------------------
test_convertRowID.R:48: failure: (unknown)
identical(rownames(out$output), c("3", "2", "4", "7")) isn't true.
test_convertRowID.R:51: failure: (unknown)
identical(rownames(out$output), c("3", "2", "4", "7")) isn't true.
test_convertRowID.R:53: warning: (unknown)
number of items to replace is not a multiple of replacement length
test_convertRowID.R:54: failure: (unknown)
identical(rownames(out$output), c("3", "2", "4", "7")) isn't true.
test_convertRowID.R:56: warning: (unknown)
number of items to replace is not a multiple of replacement length
test_convertRowID.R:59: warning: (unknown)
number of items to replace is not a multiple of replacement length
test_convertRowID.R:112: failure: (unknown)
identical(rownames(out$output), c("5", "2", "7")) isn't true.
test_convertRowID.R:115: failure: (unknown)
identical(rownames(out$output), c("5", "2", "7")) isn't true.
test_convertRowID.R:117: warning: (unknown)
number of items to replace is not a multiple of replacement length
test_convertRowID.R:118: failure: (unknown)
identical(rownames(out$output), c("5", "2", "7")) isn't true.
test_convertRowID.R:120: warning: (unknown)
number of items to replace is not a multiple of replacement length
test_convertRowID.R:123: warning: (unknown)
number of items to replace is not a multiple of replacement length
--------------------------------------------------------------------------------
== Results =====================================================================
Duration: 0.1 s
OK: 14
Failed: 6
Warnings: 6
Skipped: 0
> test_file("testthat/test_cellMarkerToGmt.R")
v | OK F W S | Context
/ | 0 | cellMarkerToGmt
- | 0 1 | cellMarkerToGmt
- | 1 4 | cellMarkerToGmt
v | 16 4 | cellMarkerToGmt [0.3 s]
--------------------------------------------------------------------------------
test_cellMarkerToGmt.R:134: warning: (unknown)
1 record(s) contain duplicate ids: Meniscus
test_cellMarkerToGmt.R:135: warning: (unknown)
1 record(s) contain duplicate ids: Meniscus
test_cellMarkerToGmt.R:140: warning: (unknown)
1 record(s) contain duplicate ids: Pancreas
test_cellMarkerToGmt.R:141: warning: (unknown)
1 record(s) contain duplicate ids: Pancreas
--------------------------------------------------------------------------------
== Results =====================================================================
Duration: 0.3 s
OK: 16
Failed: 0
Warnings: 4
Skipped: 0
HOORAY - stupendous code.
>
> proc.time()
user system elapsed
13.71 1.20 29.93
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scTGIF.Rcheck/examples_i386/scTGIF-Ex.timings
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scTGIF.Rcheck/examples_x64/scTGIF-Ex.timings
|