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Package 158/472HostnameOS / ArchBUILDCHECKBUILD BIN
flowQ 1.13.0
F. Hahne
Snapshot Date: 2011-06-21 19:21:48 -0700 (Tue, 21 Jun 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowQ
Last Changed Rev: 54802 / Revision: 56351
Last Changed Date: 2011-04-13 15:36:43 -0700 (Wed, 13 Apr 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  ERROR  skipped 
liverpool Windows Server 2003 R2 (32-bit) / x64  ERROR  skipped  skipped 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  ERROR  skipped  skipped 
moscato1 Windows Server 2008 R2 Enterprise (64-bit) / x64  ERROR  skipped  skipped 
pelham Mac OS X Leopard (10.5.8) / i386 [ ERROR ] skipped  skipped 

Summary

Package: flowQ
Version: 1.13.0
Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data flowQ
StartedAt: 2011-06-21 23:00:21 -0700 (Tue, 21 Jun 2011)
EndedAt: 2011-06-21 23:01:43 -0700 (Tue, 21 Jun 2011)
EllapsedTime: 81.9 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

* checking for file ‘flowQ/DESCRIPTION’ ... OK
* preparing ‘flowQ’:
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
* creating vignettes ... ERROR
Loading required package: outliers
Loading required package: lattice
Loading required package: flowViz
Loading required package: flowCore
Loading required package: Biobase

Welcome to Bioconductor

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

Loading required package: rrcov
Loading required package: robustbase
Loading required package: pcaPP
Loading required package: mvtnorm

Attaching package: ‘flowCore’

The following object(s) are masked from ‘package:stats’:

    alias, filter

KernSmooth 2.23 loaded
Copyright M. P. Wand 1997-2009
Loading required package: mvoutlier
Loading required package: compositions
Loading required package: rgl
Loading required package: tensorA

Attaching package: ‘tensorA’

The following object(s) are masked from ‘package:base’:

    norm

Loading required package: energy
Loading required package: boot

Attaching package: ‘boot’

The following object(s) are masked from ‘package:robustbase’:

    salinity

The following object(s) are masked from ‘package:lattice’:

    melanoma

Loading required package: MASS

Attaching package: ‘compositions’

The following object(s) are masked from ‘package:flowCore’:

    normalize

The following object(s) are masked from ‘package:stats’:

    cor, cov, dist, var

The following object(s) are masked from ‘package:base’:

    %*%, scale, scale.default

Loading required package: robCompositions
Loading required package: car
Loading required package: nnet
Loading required package: survival
Loading required package: splines

Attaching package: ‘survival’

The following object(s) are masked from ‘package:boot’:

    aml

The following object(s) are masked from ‘package:robustbase’:

    heart


Attaching package: ‘car’

The following object(s) are masked from ‘package:boot’:

    logit


Attaching package: ‘robCompositions’

The following object(s) are masked from ‘package:compositions’:

    alr, clr, ilr

Loading required package: bioDist
Loading required package: KernSmooth
Loading required package: parody
Loading required package: tools
Loading required package: RColorBrewer
Loading required package: latticeExtra

Attaching package: ‘latticeExtra’

The following object(s) are masked from ‘package:flowViz’:

    ecdfplot

Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
   **** Warning:  File has an invalid xref entry:  14.  Rebuilding xref table.

   **** This file had errors that were repaired or ignored.
   **** The file was produced by: 
   **** >>>> ImageMagick 6.3.3 03/06/07 Q16 http://www.imagemagick.org <<<<
   **** Please notify the author of the software that produced this
   **** file that it does not conform to Adobe‘s published PDF
   **** specification.

   **** Warning:  File has an invalid xref entry:  14.  Rebuilding xref table.

   **** This file had errors that were repaired or ignored.
   **** The file was produced by: 
   **** >>>> ImageMagick 6.3.3 03/06/07 Q16 http://www.imagemagick.org <<<<
   **** Please notify the author of the software that produced this
   **** file that it does not conform to Adobe’s published PDF
   **** specification.

Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
Warning in names(agTmp) <- parms :
  Class ‘aggregatorList’ has no ‘names’ slot; assigning a names attribute will create an invalid object
   **** Warning:  File has an invalid xref entry:  14.  Rebuilding xref table.

   **** This file had errors that were repaired or ignored.
   **** The file was produced by: 
   **** >>>> ImageMagick 6.3.3 03/06/07 Q16 http://www.imagemagick.org <<<<
   **** Please notify the author of the software that produced this
   **** file that it does not conform to Adobe‘s published PDF
   **** specification.

   **** Warning:  File has an invalid xref entry:  14.  Rebuilding xref table.

   **** This file had errors that were repaired or ignored.
   **** The file was produced by: 
   **** >>>> ImageMagick 6.3.3 03/06/07 Q16 http://www.imagemagick.org <<<<
   **** Please notify the author of the software that produced this
   **** file that it does not conform to Adobe’s published PDF
   **** specification.


Error: processing vignette ‘DataQualityAssessment.Rnw’ failed with diagnostics:
 chunk 14 (label = displayBoundaryData) 
Error in names(agTmp[[j]]) <- paste(dyes[j]) : 
  Class ‘binaryAggregator’ has no ‘names’ slot
Execution halted