A. MacNamara
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/CNORdt |
| Branch: RELEASE_3_9 |
| Last Commit: 259b0c8 |
| Last Changed Date: 2019-05-02 11:53:38 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:27:01 -0400 (Wed, 16 Oct 2019).
| Package 303/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| CNORdt 1.26.0 A. MacNamara
| 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 | |
| Package: CNORdt |
| Version: 1.26.0 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CNORdt.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings CNORdt_1.26.0.tar.gz |
| StartedAt: 2019-10-16 02:45:23 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 02:48:40 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 197.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: CNORdt.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:CNORdt.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings CNORdt_1.26.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/CNORdt.Rcheck'
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'CNORdt/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CNORdt' version '1.26.0'
* 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 'CNORdt' 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
Package in Depends field not imported from: 'abind'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
gaBinaryDT: no visible global function definition for 'runif'
getFitDT: no visible global function definition for 'splinefun'
getFitDT: no visible global function definition for 'optim'
shift: no visible global function definition for 'tail'
shift: no visible global function definition for 'head'
Undefined global functions or variables:
head optim runif splinefun tail
Consider adding
importFrom("stats", "optim", "runif", "splinefun")
importFrom("utils", "head", "tail")
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/CNORdt/libs/i386/CNORdt.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
File 'C:/Users/biocbuild/bbs-3.9-bioc/R/library/CNORdt/libs/x64/CNORdt.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
Examples with CPU or elapsed time > 5s
user system elapsed
cutAndPlotResultsDT 31.03 0.05 31.09
gaBinaryDT 30.33 0.00 30.33
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
cutAndPlotResultsDT 30.94 0.01 30.96
gaBinaryDT 30.59 0.02 30.61
* 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: 3 NOTEs
See
'C:/Users/biocbuild/bbs-3.9-bioc/meat/CNORdt.Rcheck/00check.log'
for details.
CNORdt.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/CNORdt_1.26.0.tar.gz && rm -rf CNORdt.buildbin-libdir && mkdir CNORdt.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CNORdt.buildbin-libdir CNORdt_1.26.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL CNORdt_1.26.0.zip && rm CNORdt_1.26.0.tar.gz CNORdt_1.26.0.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
23 71206 23 16384 0 0 202k 0 --:--:-- --:--:-- --:--:-- 216k
100 71206 100 71206 0 0 867k 0 --:--:-- --:--:-- --:--:-- 927k
install for i386
* installing *source* package 'CNORdt' ...
** using staged installation
** 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 simulatorDT.c -o simulatorDT.o
simulatorDT.c: In function 'simulatorDT':
simulatorDT.c:55:6: warning: unused variable 'nTimes' [-Wunused-variable]
int nTimes = INTEGER(nTimes_in)[0];
^
simulatorDT.c:53:6: warning: unused variable 'nSignals' [-Wunused-variable]
int nSignals = INTEGER(nSignals_in)[0];
^
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o CNORdt.dll tmp.def simulatorDT.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/CNORdt.buildbin-libdir/00LOCK-CNORdt/00new/CNORdt/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'CNORdt'
finding HTML links ... done
CNOlistPB html
computeScoreDT html
convert2array html
cutAndPlotResultsDT html
finding level-2 HTML links ... done
gaBinaryDT html
getFitDT html
modelPB html
simulatorDT 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 'CNORdt' ...
** 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 simulatorDT.c -o simulatorDT.o
simulatorDT.c: In function 'simulatorDT':
simulatorDT.c:55:6: warning: unused variable 'nTimes' [-Wunused-variable]
int nTimes = INTEGER(nTimes_in)[0];
^
simulatorDT.c:53:6: warning: unused variable 'nSignals' [-Wunused-variable]
int nSignals = INTEGER(nSignals_in)[0];
^
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o CNORdt.dll tmp.def simulatorDT.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/CNORdt.buildbin-libdir/CNORdt/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CNORdt' as CNORdt_1.26.0.zip
* DONE (CNORdt)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'CNORdt' successfully unpacked and MD5 sums checked
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CNORdt.Rcheck/examples_i386/CNORdt-Ex.timings
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CNORdt.Rcheck/examples_x64/CNORdt-Ex.timings
|