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Package 45/436HostnameOS / ArchBUILDCHECKBUILD BIN
BGmix 1.11.1
Alex Lewin
Snapshot Date: 2011-02-24 11:26:35 -0800 (Thu, 24 Feb 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/BGmix
Last Changed Rev: 52466 / Revision: 53255
Last Changed Date: 2011-02-04 15:23:24 -0800 (Fri, 04 Feb 2011)
lamb2 Linux (openSUSE 11.2) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK [ OK ] OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64 N O T   S U P P O R T E D
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.4) / i386  OK  OK  OK 

Summary

Package: BGmix
Version: 1.11.1
Command: E:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings BGmix_1.11.1.tar.gz
StartedAt: 2011-02-24 17:07:58 -0800 (Thu, 24 Feb 2011)
EndedAt: 2011-02-24 17:11:22 -0800 (Thu, 24 Feb 2011)
EllapsedTime: 203.9 seconds
RetCode: 0
Status:  OK  
CheckDir: BGmix.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.8-bioc/meat/BGmix.Rcheck'
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'BGmix/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'BGmix' version '1.11.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'BGmix' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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
* 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... OK
* checking for unstated 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 ... OK
* 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 data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $BLAS_LIBS ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

BGmix.Rcheck/00install.out:

* installing *source* package 'BGmix' ...
** libs
g++ -I"E:/biocbld/BBS-2˜1.8-B/R/include" -I ../boostIncl      -DUSING_R   -O2 -Wall  -c BGmix_main.cpp -o BGmix_main.o
BGmix_main.cpp: In function 'void BGmix(int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, int&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double*, double*, double*, int*, int&, double*, int*, char**, char**, char**, char**, char**)':
BGmix_main.cpp:165:31: warning: suggest parentheses around comparison in operand of '&'
BGmix_main.cpp:178:27: warning: suggest parentheses around comparison in operand of '&'
BGmix_main.cpp:179:47: warning: suggest parentheses around comparison in operand of '&'
BGmix_main.cpp:546:48: warning: suggest parentheses around comparison in operand of '|'
BGmix_main.cpp:621:48: warning: suggest parentheses around comparison in operand of '|'
g++ -I"E:/biocbld/BBS-2˜1.8-B/R/include" -I ../boostIncl      -DUSING_R   -O2 -Wall  -c rundir.cpp -o rundir.o
g++ -I"E:/biocbld/BBS-2˜1.8-B/R/include" -I ../boostIncl      -DUSING_R   -O2 -Wall  -c updates_BGmix.cpp -o updates_BGmix.o
updates_BGmix.cpp: In function 'void update_z_beta1_joint2(int*, double**, int*, int&, int&, double*, double&, double&, double**, double**, double**, int*, double**, double**, int&, int&, int&, int*, int&, int&, int&, Random&)':
updates_BGmix.cpp:192:29: warning: suggest parentheses around comparison in operand of '|'
updates_BGmix.cpp:200:28: warning: suggest parentheses around comparison in operand of '|'
updates_BGmix.cpp: In function 'void predict(double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double*, double**, double*, double**, double**, double**, double**, double*, double*, int*, double**, double**, int*, double*, double&, double&, double&, double&, double&, int&, int&, int&, int&, int&, int*, int&, Random&)':
updates_BGmix.cpp:870:41: warning: suggest parentheses around comparison in operand of '|'
updates_BGmix.cpp:883:46: warning: suggest parentheses around comparison in operand of '|'
updates_BGmix.cpp:883:67: warning: suggest parentheses around comparison in operand of '|'
updates_BGmix.cpp:893:43: warning: suggest parentheses around comparison in operand of '|'
updates_BGmix.cpp: In function 'void predict_t(double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double**, double*, double*, double*, int*, double**, double**, int*, double*, double&, double&, double&, double&, double&, int&, int&, int&, int&, int&, int*, int&, Random&)':
updates_BGmix.cpp:992:41: warning: suggest parentheses around comparison in operand of '|'
updates_BGmix.cpp:1005:46: warning: suggest parentheses around comparison in operand of '|'
updates_BGmix.cpp:1005:67: warning: suggest parentheses around comparison in operand of '|'
updates_BGmix.cpp:1015:43: warning: suggest parentheses around comparison in operand of '|'
g++ -shared -s -static-libgcc -o BGmix.dll tmp.def BGmix_main.o rundir.o updates_BGmix.o -LE:/biocbld/BBS-2˜1.8-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.8-bioc/meat/BGmix.Rcheck/BGmix/libs/i386
** R
** data
** inst
** preparing package for lazy loading
KernSmooth 2.23 loaded
Copyright M. P. Wand 1997-2009
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (BGmix)

BGmix.Rcheck/BGmix-Ex.timings:

nameusersystemelapsed
BGmix-package13.06 0.0513.70
BGmix30.39 0.2331.17
EstimatePi08.890.139.44
FDRforTailPP18.00 0.5919.06
FDRplotTailPP 8.55 0.2410.39
TailPP8.530.179.19
calcFDR3.270.013.36
ccParams3.280.023.58
ccPred3.260.035.31
ccSummary3.250.083.33
ccTrace3.800.054.32
histTailPP8.720.299.14
plotBasic3.330.053.58
plotCompare0.000.000.05
plotFDR3.400.023.44
plotMixDensity12.88 0.1813.48
plotPredChecks3.360.033.56
plotTrace3.860.073.96