Thomas J. Hardcastle
| Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021) |
| URL: https://git.bioconductor.org/packages/clusterSeq |
| Branch: RELEASE_3_12 |
| Last Commit: f1e1602 |
| Last Changed Date: 2020-10-27 11:20:11 -0400 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.12 |
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This page was generated on 2021-05-06 12:30:21 -0400 (Thu, 06 May 2021).
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To the developers/maintainers of the clusterSeq package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 324/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| clusterSeq 1.14.0 (landing page) Thomas J. Hardcastle
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: clusterSeq |
| Version: 1.14.0 |
| Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:clusterSeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings clusterSeq_1.14.0.tar.gz |
| StartedAt: 2021-05-06 01:32:15 -0400 (Thu, 06 May 2021) |
| EndedAt: 2021-05-06 01:55:24 -0400 (Thu, 06 May 2021) |
| EllapsedTime: 1389.0 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: clusterSeq.Rcheck |
| Warnings: 1 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:clusterSeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings clusterSeq_1.14.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/clusterSeq.Rcheck'
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'clusterSeq/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'clusterSeq' version '1.14.0'
* 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 'clusterSeq' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/associatePosteriors.Rd:19: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/associatePosteriors.Rd:33: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/cD.ratThymus-data.Rd:9: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/cD.ratThymus-data.Rd:19: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/cD.ratThymus-data.Rd:17: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/kCluster.Rd:20: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/kCluster.Rd:70: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
See 'C:/Users/biocbuild/bbs-3.12-bioc/meat/clusterSeq.Rcheck/00install.out' for details.
* 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 ... 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 ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
makeClustersFF 6.46 0.05 87.24
kCluster 3.25 0.25 161.92
clusterSeq-package 2.71 0.22 130.83
wallace 1.79 0.09 91.99
makeClusters 1.50 0.11 98.72
associatePosteriors 0.92 0.03 23.82
plotCluster 0.64 0.03 16.82
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
makeClustersFF 6.70 0.01 80.95
kCluster 3.19 0.22 167.92
wallace 3.32 0.07 90.75
clusterSeq-package 1.90 0.20 142.19
makeClusters 1.83 0.13 101.88
associatePosteriors 0.89 0.02 20.58
plotCluster 0.83 0.06 22.69
* 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
See
'C:/Users/biocbuild/bbs-3.12-bioc/meat/clusterSeq.Rcheck/00check.log'
for details.
clusterSeq.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/clusterSeq_1.14.0.tar.gz && rm -rf clusterSeq.buildbin-libdir && mkdir clusterSeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=clusterSeq.buildbin-libdir clusterSeq_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL clusterSeq_1.14.0.zip && rm clusterSeq_1.14.0.tar.gz clusterSeq_1.14.0.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 846k 100 846k 0 0 17.7M 0 --:--:-- --:--:-- --:--:-- 18.3M
install for i386
* installing *source* package 'clusterSeq' ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'clusterSeq'
finding HTML links ... done
associatePosteriors html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/associatePosteriors.Rd:19: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/associatePosteriors.Rd:33: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
cD.ratThymus-data html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/cD.ratThymus-data.Rd:9: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/cD.ratThymus-data.Rd:19: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/cD.ratThymus-data.Rd:17: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
clusterSeq-package html
kCluster html
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/kCluster.Rd:20: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.12-bioc/tmpdir/RtmpaK6xj4/R.INSTALL1538597c49d0/clusterSeq/man/kCluster.Rd:70: file link 'countData' in package 'baySeq' does not exist and so has been treated as a topic
makeClusters html
makeClustersFF html
plotCluster html
ratThymus-data html
wallace 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 'clusterSeq' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'clusterSeq' as clusterSeq_1.14.0.zip
* DONE (clusterSeq)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'clusterSeq' successfully unpacked and MD5 sums checked
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clusterSeq.Rcheck/examples_i386/clusterSeq-Ex.timings
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clusterSeq.Rcheck/examples_x64/clusterSeq-Ex.timings
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