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BioC 2.13: CHECK report for Icens on moscato1

This page was generated on 2014-04-05 09:49:04 -0700 (Sat, 05 Apr 2014).

Package 362/750HostnameOS / ArchBUILDCHECKBUILD BIN
Icens 1.34.0
Bioconductor Package Maintainer
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/Icens
Last Changed Rev: 81642 / Revision: 88450
Last Changed Date: 2013-10-14 14:29:21 -0700 (Mon, 14 Oct 2013)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: Icens
Version: 1.34.0
Command: rm -rf Icens.buildbin-libdir && mkdir Icens.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Icens.buildbin-libdir Icens_1.34.0.tar.gz >Icens-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=Icens.buildbin-libdir --install="check:Icens-install.out" --force-multiarch --no-vignettes --timings Icens_1.34.0.tar.gz && mv Icens.buildbin-libdir/* Icens.Rcheck/ && rmdir Icens.buildbin-libdir
StartedAt: 2014-04-05 04:38:59 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 04:40:10 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 70.3 seconds
RetCode: 0
Status:  OK  
CheckDir: Icens.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.13-bioc/meat/Icens.Rcheck'
* using R version 3.0.3 (2014-03-06)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Icens/DESCRIPTION' ... OK
* this is package 'Icens' version '1.34.0'
* 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 'Icens' can be installed ... OK
* checking installed package size ... OK
* checking package 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: 'survival'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
VEMICMmac: no visible binding for global variable 'EMstep'
* 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 examples ...
** running examples for arch 'i386' ... [19s] OK
Examples with CPU or elapsed time > 5s
      user system elapsed
ISDM 10.81      0   10.81
** running examples for arch 'x64' ... [18s] OK
Examples with CPU or elapsed time > 5s
     user system elapsed
ISDM 9.96      0    9.97
* checking for unstated dependencies in tests ... OK
* checking tests ...
** running tests for arch 'i386'
  Running 'testbv.R' [1s]
  Comparing 'testbv.Rout' to 'testbv.Rout.save' ...117c117
<  [6] 1.461001e+00 1.207129e+00 1.000000e+00 4.748624e-01 4.639536e-17
---
>  [6]  1.461001e+00  1.207129e+00  1.000000e+00  4.748624e-01 -2.480201e-16
Warning message:
running command '"diff" -bw "D:\biocbld\bbs-2.13-bioc\tmpdir\RtmpIx5AWj\Rdiffa162831864431" "D:\biocbld\bbs-2.13-bioc\tmpdir\RtmpIx5AWj\Rdiffb16281e14751b"' had status 1 
 [1s] OK
** running tests for arch 'x64'
  Running 'testbv.R' [1s]
  Comparing 'testbv.Rout' to 'testbv.Rout.save' ...117c117
<  [6]  1.461001e+00  1.207129e+00  1.000000e+00  4.748624e-01 -2.640501e-16
---
>  [6]  1.461001e+00  1.207129e+00  1.000000e+00  4.748624e-01 -2.480201e-16
Warning message:
running command '"diff" -bw "D:\biocbld\bbs-2.13-bioc\tmpdir\RtmpoBBTPz\Rdiffa2b4c54081d95" "D:\biocbld\bbs-2.13-bioc\tmpdir\RtmpoBBTPz\Rdiffb2b4c77652224"' had status 1 
 [1s] OK
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  'D:/biocbld/bbs-2.13-bioc/meat/Icens.Rcheck/00check.log'
for details.

Icens.Rcheck/00install.out:


install for i386

* installing *source* package 'Icens' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded

install for x64

* installing *source* package 'Icens' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Icens' as Icens_1.34.0.zip
* DONE (Icens)

Icens.Rcheck/examples_i386/Icens-Ex.timings:

nameusersystemelapsed
BVcliques0.560.020.58
BVclmat3.510.003.51
BVsupport2.260.002.26
EM0.150.000.14
EMICM0.150.000.16
ISDM10.81 0.0010.81
MLEintvl0.020.010.03
Maclist0.020.000.01
Macmat0.030.000.03
PGM0.160.000.16
Plotboxes0.040.020.06
VEM0.130.000.13
cmv000
cosmesis0.020.000.02
hiv0.020.000.02
plot.icsurv0.310.020.32
pruitt000

Icens.Rcheck/examples_x64/Icens-Ex.timings:

nameusersystemelapsed
BVcliques0.380.000.38
BVclmat2.380.012.40
BVsupport2.940.002.93
EM0.200.000.21
EMICM0.180.000.17
ISDM9.960.009.97
MLEintvl0.050.000.05
Maclist0.020.000.01
Macmat0.020.000.02
PGM0.170.000.17
Plotboxes0.040.020.07
VEM0.160.000.15
cmv000
cosmesis000
hiv0.000.010.02
plot.icsurv0.360.000.36
pruitt000