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Package 9/479HostnameOS / ArchBUILDCHECKBUILD BIN
ACME 2.9.1
Sean Davis
Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ACME
Last Changed Rev: 56198 / Revision: 56603
Last Changed Date: 2011-06-15 03:36:07 -0700 (Wed, 15 Jun 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise (64-bit) / x64  OK [ OK ] OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: ACME
Version: 2.9.1
Command: mkdir ACME.buildbin-libdir && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ACME.buildbin-libdir ACME_2.9.1.tar.gz >ACME-install.out 2>&1 && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --library=ACME.buildbin-libdir --install="check:ACME-install.out" --force-multiarch --no-vignettes --timings ACME_2.9.1.tar.gz && mv ACME.buildbin-libdir/* ACME.Rcheck/ && rmdir ACME.buildbin-libdir
StartedAt: 2011-07-07 03:54:24 -0700 (Thu, 07 Jul 2011)
EndedAt: 2011-07-07 03:57:37 -0700 (Thu, 07 Jul 2011)
EllapsedTime: 192.1 seconds
RetCode: 0
Status:  OK  
CheckDir: ACME.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/ACME.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-20 r56188)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ACME/DESCRIPTION' ... OK
* this is package 'ACME' version '2.9.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'ACME' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 32.3Mb
  sub-directories of 1Mb or more:
    data      4.5Mb
    extdata  27.3Mb
* 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
* 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 name space can be loaded with stated dependencies ... OK
** checking whether the name space 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 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 ... NOTE
findClosestGene: no visible binding for global variable 'refflat'
findClosestGene: no visible binding for '<<-' assignment to 'refflat'
* 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 ... NOTE
  
  Note: significantly better compression could be obtained
        by using tools::resaveRdaFiles() or R CMD build --resave-data
                   old_size new_size compress
  example.agff.rda    4.5Mb    3.1Mb       xz
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

ACME.Rcheck/00install.out:


install for i386

* installing *source* package 'ACME' ...
** libs
gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c windowChisq.c -o windowChisq.o
windowChisq.c: In function 'windowChisq':
windowChisq.c:58:4: warning: suggest parentheses around comparison in operand of '&'
windowChisq.c:63:4: warning: suggest parentheses around comparison in operand of '&'
windowChisq.c:21:11: warning: unused variable 'xa'
windowChisq.c: At top level:
windowChisq.c:86:5: warning: initialization from incompatible pointer type
gcc -shared -s -static-libgcc -o ACME.dll tmp.def windowChisq.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/ACME.buildbin-libdir/ACME/libs/i386
** R
** data
** inst
** preparing package for lazy loading

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

Creating a generic function for "print" from package "base" in package "ACME"
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'ACME.Rnw' 
** testing if installed package can be loaded

add DLL for x64

* installing *source* package 'ACME' ...
** libs
x86_64-w64-mingw32-gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -std=gnu99 -mtune=core2 -c windowChisq.c -o windowChisq.o
windowChisq.c: In function 'windowChisq':
windowChisq.c:58:4: warning: suggest parentheses around comparison in operand of '&'
windowChisq.c:63:4: warning: suggest parentheses around comparison in operand of '&'
windowChisq.c:21:11: warning: unused variable 'xa'
windowChisq.c: At top level:
windowChisq.c:86:5: warning: initialization from incompatible pointer type
x86_64-w64-mingw32-gcc -shared -s -static-libgcc -o ACME.dll tmp.def windowChisq.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/ACME.buildbin-libdir/ACME/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ACME' as ACME_2.9.1.zip

* DONE (ACME)

ACME.Rcheck/ACME-Ex.timings:

nameusersystemelapsed
ACMECalcSet-class5.880.246.12
ACMESet-class0.420.000.42
aGFF-class0.430.000.42
aGFFCalc-class3.820.144.01
do.aGFF.calc3.730.173.90
example.agff0.430.000.43
findClosestGene1.890.097.15
findRegions5.850.196.04
generics0.530.030.56
getRefflat1.840.085.60
read.resultsGFF5.770.045.82
write.bedGraph3.770.023.85
write.sgr3.620.024.65