Xin Wang
| Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019) |
| URL: https://git.bioconductor.org/packages/PANR |
| Branch: RELEASE_3_8 |
| Last Commit: 81b5a65 |
| Last Changed Date: 2019-01-04 13:42:47 -0400 (Fri, 04 Jan 2019) |
| Back to Multiple platform build/check report for BioC 3.8 |
|
This page was generated on 2019-04-13 11:21:50 -0400 (Sat, 13 Apr 2019).
| Package 1115/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| PANR 1.28.1 Xin Wang
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: PANR |
| Version: 1.28.1 |
| Command: C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:PANR.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings PANR_1.28.1.tar.gz |
| StartedAt: 2019-04-13 04:22:45 -0400 (Sat, 13 Apr 2019) |
| EndedAt: 2019-04-13 04:25:19 -0400 (Sat, 13 Apr 2019) |
| EllapsedTime: 154.1 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: PANR.Rcheck |
| Warnings: 1 |
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### Running command:
###
### C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:PANR.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings PANR_1.28.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/PANR.Rcheck'
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'PANR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'PANR' version '1.28.1'
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
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 'PANR' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/PAN-class.Rd:21: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/PAN-class.Rd:85: file link 'igraph' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/PAN-class.Rd:85: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/PAN-class.Rd:89: file link 'igraph' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/PAN-class.Rd:89: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/buildPAN.Rd:9: file link 'igraph' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/buildPAN.Rd:9: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/buildPAN.Rd:40: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/buildPAN.Rd:44: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/data-Bakal2007.Rd:29: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/exportPAN.Rd:8: file link 'write.graph' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/exportPAN.Rd:8: file link 'igraph' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/exportPAN.Rd:31: file link 'write.graph' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/fitBM.Rd:40: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/fitNULL.Rd:25: file link 'dbeta' in package 'stats' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/permNULL.Rd:28: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewNestedModules.Rd:9: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewNestedModules.Rd:38: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewPAN.Rd:10: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewPAN.Rd:28: file link 'layout' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewPAN.Rd:42: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewPAN.Rd:60: file link 'layout' in package 'igraph' does not exist and so has been treated as a topic
See 'C:/Users/biocbuild/bbs-3.8-bioc/meat/PANR.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 ... NOTE
SNR2p,BetaMixture-numeric_Or_integer: no visible global function
definition for 'runif'
SNR2p,BetaMixture-numeric_Or_integer: no visible global function
definition for 'pbeta'
p2SNR,BetaMixture-numeric_Or_integer: no visible global function
definition for 'qbeta'
Undefined global functions or variables:
pbeta qbeta runif
Consider adding
importFrom("stats", "pbeta", "qbeta", "runif")
to your NAMESPACE file.
* 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 or elapsed time > 5s
user system elapsed
fitNULL 30.13 0.28 30.42
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
fitNULL 25.19 0.11 25.31
* 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
'C:/Users/biocbuild/bbs-3.8-bioc/meat/PANR.Rcheck/00check.log'
for details.
PANR.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/PANR_1.28.1.tar.gz && rm -rf PANR.buildbin-libdir && mkdir PANR.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PANR.buildbin-libdir PANR_1.28.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL PANR_1.28.1.zip && rm PANR_1.28.1.tar.gz PANR_1.28.1.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
0 2025k 0 16384 0 0 286k 0 0:00:07 --:--:-- 0:00:07 301k
100 2025k 100 2025k 0 0 25.2M 0 --:--:-- --:--:-- --:--:-- 26.3M
install for i386
* installing *source* package 'PANR' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'PANR'
finding HTML links ... done
BetaMixture-class html
PAN-class html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/PAN-class.Rd:21: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/PAN-class.Rd:85: file link 'igraph' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/PAN-class.Rd:85: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/PAN-class.Rd:89: file link 'igraph' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/PAN-class.Rd:89: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
SNR2p html
assoScore html
buildPAN html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/buildPAN.Rd:9: file link 'igraph' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/buildPAN.Rd:9: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/buildPAN.Rd:40: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/buildPAN.Rd:44: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
cosineSim html
data-Bakal2007 html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/data-Bakal2007.Rd:29: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
edgeWeight html
exportPAN html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/exportPAN.Rd:8: file link 'write.graph' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/exportPAN.Rd:8: file link 'igraph' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/exportPAN.Rd:31: file link 'write.graph' in package 'igraph' does not exist and so has been treated as a topic
fitBM html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/fitBM.Rd:40: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
fitNULL html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/fitNULL.Rd:25: file link 'dbeta' in package 'stats' does not exist and so has been treated as a topic
infer html
p2SNR html
permNULL html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/permNULL.Rd:28: file link 'BetaMixture' in package 'PANR' does not exist and so has been treated as a topic
pvclustModule html
sigModules html
summarize html
view html
viewLegend html
viewNestedModules html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewNestedModules.Rd:9: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewNestedModules.Rd:38: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
viewPAN html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewPAN.Rd:10: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewPAN.Rd:28: file link 'layout' in package 'igraph' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewPAN.Rd:42: file link 'RedeR' in package 'RedeR' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpmgTm7v/R.INSTALL15244dd026ac/PANR/man/viewPAN.Rd:60: file link 'layout' in package 'igraph' does not exist and so has been treated as a topic
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'PANR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'PANR' as PANR_1.28.1.zip
* DONE (PANR)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'PANR' successfully unpacked and MD5 sums checked
In R CMD INSTALL
|
PANR.Rcheck/examples_i386/PANR-Ex.timings
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PANR.Rcheck/examples_x64/PANR-Ex.timings
|