Magnus Astrand
| Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019) |
| URL: https://git.bioconductor.org/packages/plw |
| Branch: master |
| Last Commit: 3524ffb |
| Last Changed Date: 2018-10-30 11:54:27 -0400 (Tue, 30 Oct 2018) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-04-09 11:56:07 -0400 (Tue, 09 Apr 2019).
| Package 1201/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| plw 1.43.0 Magnus Astrand
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
| Package: plw |
| Version: 1.43.0 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:plw.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings plw_1.43.0.tar.gz |
| StartedAt: 2019-04-09 04:58:37 -0400 (Tue, 09 Apr 2019) |
| EndedAt: 2019-04-09 05:00:02 -0400 (Tue, 09 Apr 2019) |
| EllapsedTime: 85.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: plw.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:plw.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings plw_1.43.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/plw.Rcheck'
* using R Under development (unstable) (2019-03-09 r76216)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'plw/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'plw' version '1.43.0'
* 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 'plw' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Title field: should not end in a period.
Package listed in more than one of Depends, Imports, Suggests, Enhances:
'affy'
A package should be listed in only one of these fields.
* 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 ... NOTE
Foreign function call to a different package:
.C("qnorm_c", ..., PACKAGE = "affy")
See chapter 'System and foreign language interfaces' in the 'Writing R
Extensions' manual.
* checking R code for possible problems ... NOTE
.onAttach: no visible global function definition for 'winMenuAddItem'
Undefined global functions or variables:
winMenuAddItem
Consider adding
importFrom("utils", "winMenuAddItem")
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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'C:/Users/biocbuild/bbs-3.9-bioc/R/library/plw/libs/i386/plw.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
File 'C:/Users/biocbuild/bbs-3.9-bioc/R/library/plw/libs/x64/plw.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. The detected symbols are linked into the code but
might come from libraries and not actually be called.
See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... 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: 4 NOTEs
See
'C:/Users/biocbuild/bbs-3.9-bioc/meat/plw.Rcheck/00check.log'
for details.
plw.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/plw_1.43.0.tar.gz && rm -rf plw.buildbin-libdir && mkdir plw.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=plw.buildbin-libdir plw_1.43.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL plw_1.43.0.zip && rm plw_1.43.0.tar.gz plw_1.43.0.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 390k 100 390k 0 0 5024k 0 --:--:-- --:--:-- --:--:-- 5503k
install for i386
* installing *source* package 'plw' ...
** libs
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c SpecialFunctions.c -o SpecialFunctions.o
SpecialFunctions.c: In function 'getPosteriorProbsAndSigmaHatStrata0':
SpecialFunctions.c:154:20: warning: variable 's2' set but not used [-Wunused-but-set-variable]
double kk,C,s0,s1,s2,temp0,aa;
^
SpecialFunctions.c:154:17: warning: variable 's1' set but not used [-Wunused-but-set-variable]
double kk,C,s0,s1,s2,temp0,aa;
^
SpecialFunctions.c:154:14: warning: variable 's0' set but not used [-Wunused-but-set-variable]
double kk,C,s0,s1,s2,temp0,aa;
^
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c SpecialOptim.c -o SpecialOptim.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o plw.dll tmp.def SpecialFunctions.o SpecialOptim.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/plw.buildbin-libdir/00LOCK-plw/00new/plw/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'plw'
finding HTML links ... done
AffySpikeU95Subset html
HowToPLW html
estimateMVbeta html
estimateSigma html
estimateSigmaMV html
estimateSigmaMVbeta html
getKnots html
lmw html
logitT html
plw-package html
plw html
scaleParameterPlot html
statByIndex html
topRankSummary html
varHistPlot 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 'plw' ...
** libs
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c SpecialFunctions.c -o SpecialFunctions.o
SpecialFunctions.c: In function 'getPosteriorProbsAndSigmaHatStrata0':
SpecialFunctions.c:154:20: warning: variable 's2' set but not used [-Wunused-but-set-variable]
double kk,C,s0,s1,s2,temp0,aa;
^
SpecialFunctions.c:154:17: warning: variable 's1' set but not used [-Wunused-but-set-variable]
double kk,C,s0,s1,s2,temp0,aa;
^
SpecialFunctions.c:154:14: warning: variable 's0' set but not used [-Wunused-but-set-variable]
double kk,C,s0,s1,s2,temp0,aa;
^
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c SpecialOptim.c -o SpecialOptim.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o plw.dll tmp.def SpecialFunctions.o SpecialOptim.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/plw.buildbin-libdir/plw/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'plw' as plw_1.43.0.zip
* DONE (plw)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'plw' successfully unpacked and MD5 sums checked
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plw.Rcheck/examples_i386/plw-Ex.timings
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plw.Rcheck/examples_x64/plw-Ex.timings
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