Todd Creasy
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/BubbleTree |
| Branch: RELEASE_3_10 |
| Last Commit: 4929476 |
| Last Changed Date: 2019-10-29 13:09:09 -0400 (Tue, 29 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:24:26 -0400 (Wed, 15 Apr 2020).
| Package 204/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| BubbleTree 2.16.0 Todd Creasy
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: BubbleTree |
| Version: 2.16.0 |
| Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:BubbleTree.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings BubbleTree_2.16.0.tar.gz |
| StartedAt: 2020-04-15 01:44:04 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 01:52:09 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 484.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: BubbleTree.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:BubbleTree.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings BubbleTree_2.16.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.10-bioc/meat/BubbleTree.Rcheck'
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'BubbleTree/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'BubbleTree' version '2.16.0'
* 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 'BubbleTree' can be installed ... OK
* checking installed package size ... NOTE
installed size is 24.0Mb
sub-directories of 1Mb or more:
data 23.4Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ...It is recommended to use 'given' instead of 'middle'.
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
annoByOverlap,Annotate: no visible binding for global variable
'queryHits'
Undefined global functions or variables:
queryHits
* 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
makeRBD 14.57 0.00 14.81
heteroLociTrack 7.19 0.14 7.33
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
makeRBD 15.03 0.00 15.04
heteroLociTrack 6.42 0.22 6.64
* 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: 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.10-bioc/meat/BubbleTree.Rcheck/00check.log'
for details.
BubbleTree.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/BubbleTree_2.16.0.tar.gz && rm -rf BubbleTree.buildbin-libdir && mkdir BubbleTree.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=BubbleTree.buildbin-libdir BubbleTree_2.16.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL BubbleTree_2.16.0.zip && rm BubbleTree_2.16.0.tar.gz BubbleTree_2.16.0.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
2 23.7M 2 640k 0 0 3084k 0 0:00:07 --:--:-- 0:00:07 3121k
100 23.7M 100 23.7M 0 0 25.9M 0 --:--:-- --:--:-- --:--:-- 26.0M
install for i386
* installing *source* package 'BubbleTree' ...
** using staged installation
It is recommended to use 'given' instead of 'middle'.
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'BubbleTree'
finding HTML links ... done
Annotate html
BTreePlotter html
BTreePredictor html
RBD html
RscoreTrack html
TrackPlotter html
all.somatic.lst html
allCNV.lst html
allCall.lst html
allHetero.lst html
allRBD.lst html
annoByGenesAndCyto html
bafTrack html
btcompare html
btpredict html
cancer.genes.minus2 html
centromere.dat html
cnv.gr html
cyto.gr html
drawBTree html
drawBubbles html
drawFeatures html
gene.uni.clean.gr html
getTracks html
heteroLociTrack html
hg19.seqinfo html
info html
loadRBD html
makeRBD html
mergeSnpCnv html
saveXLS html
snp.gr html
trackBTree html
vol.genes html
xyTrack 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 'BubbleTree' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'BubbleTree' as BubbleTree_2.16.0.zip
* DONE (BubbleTree)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'BubbleTree' successfully unpacked and MD5 sums checked
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BubbleTree.Rcheck/examples_i386/BubbleTree-Ex.timings
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BubbleTree.Rcheck/examples_x64/BubbleTree-Ex.timings
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