• using R version 2.15.0 Patched (2012-05-26 r59446)
• using platform: i386-pc-solaris2.10 (32-bit)
• using session charset: UTF-8
• checking for file ‘intamapInteractive/DESCRIPTION’ ... OK
• this is package ‘intamapInteractive’ version ‘1.1-1’
• 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 .dll and .exe files ... OK
• checking whether package ‘intamapInteractive’ can be installed ... OK
• checking installed package size ... OK
• checking package directory ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... 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 namespace can be loaded with stated dependencies ... OK
• checking whether the namespace 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
  calculateDensity: warning in filled.contour(density_L, color =
  terrain.colors): partial argument match of 'color' to 'color.palette'
  ssaMap: warning in factor(overselect[i - 1], level =
  levels(netPts@data[, i])): partial argument match of 'level' to
  'levels'
  ssaMap: warning in factor(round(lres), level = levels(netPts@data[,
  i])): partial argument match of 'level' to 'levels'
  ssaOptim: warning in factor(round(lres), level = levels(predGrid@data[,
  vname])): partial argument match of 'level' to 'levels'
  Found .Internal call in the following function:
  ‘zip.file.extract.dir’
  with calls to .Internal functions
  ‘int.unzip’
  
  Packages should not call .Internal(): it is not part of the API, for
  use only by R itself and subject to change without notice.
• 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 examples ... [15s/17s] OK
• checking for unstated dependencies in tests ... OK
• checking tests ... [87s/107s] OK
  Running ‘anisotropyChoice.R’ [12s/13s]
  Comparing ‘anisotropyChoice.Rout’ to ‘anisotropyChoice.Rout.save’ ...4,6d3
  < Note: 'spcosa' requires Java (>= 6.0), which is available at www.java.com
  < This is mgcv 1.7-16. For overview type 'help("mgcv-package")'.
  < deldir 0.0-19
  8,11c5
  < PLEASE NOTE: The components "delsgs" and "summary" of the
  < object returned by deldir() are now DATA FRAMES rather than
  < matrices (as they were prior to release 0.0-18).
  < See help("deldir").
  ---
  > Attaching package: 'reshape'
  13c7,20
  < PLEASE NOTE: The process for determining duplicated points
  ---
  > The following object(s) are masked from 'package:plyr':
  >
  > rename, round_any
  >
  > Geospatial Data Abstraction Library extensions to R successfully loaded
  > Loaded GDAL runtime: GDAL 1.7.2, released 2010/04/23
  > Path to GDAL shared files: C:/Program Files/R/R-2.13.1/library/rgdal/gdal
  > Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
  > Path to PROJ.4 shared files: C:/Program Files/R/R-2.13.1/library/rgdal/proj
  > Note: 'spcosa' requires Java (>= 6.0), which is available at www.java.com
  > This is mgcv 1.7-9. For overview type 'help("mgcv-package")'.
  > deldir 0.0-15
  >
  > Please note: The process for determining duplicated points
  16c23
  < spatstat 1.27-0
  ---
  > spatstat 1.24-1
  20a28,34
  > Attaching package: 'spatstat'
  >
  > The following object(s) are masked from 'package:ggplot2':
  >
  > rescale
  >
  >
  25c39
  < as.Date, as.Date.numeric
  ---
  > as.Date
  34,38d47
  < Geospatial Data Abstraction Library extensions to R successfully loaded
  < Loaded GDAL runtime: GDAL 1.7.2, released 2010/04/23
  < Path to GDAL shared files: /usr/local/share/gdal
  < Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
  < Path to PROJ.4 shared files: (autodetected)
  39a49,55
  > Attaching package: 'akima'
  >
  > The following object(s) are masked from 'package:ggplot2':
  >
  > interp
  >
  >
  45a62
  > There were 12 warnings (use warnings() to see them)
  Running ‘biasCorr.R’ [11s/18s]
  Comparing ‘biasCorr.Rout’ to ‘biasCorr.Rout.save’ ...4,6d3
  < Note: 'spcosa' requires Java (>= 6.0), which is available at www.java.com
  < This is mgcv 1.7-16. For overview type 'help("mgcv-package")'.
  < deldir 0.0-19
  8,11c5
  < PLEASE NOTE: The components "delsgs" and "summary" of the
  < object returned by deldir() are now DATA FRAMES rather than
  < matrices (as they were prior to release 0.0-18).
  < See help("deldir").
  ---
  > Attaching package: 'reshape'
  13c7,20
  < PLEASE NOTE: The process for determining duplicated points
  ---
  > The following object(s) are masked from 'package:plyr':
  >
  > rename, round_any
  >
  > Geospatial Data Abstraction Library extensions to R successfully loaded
  > Loaded GDAL runtime: GDAL 1.7.2, released 2010/04/23
  > Path to GDAL shared files: C:/Program Files/R/R-2.13.1/library/rgdal/gdal
  > Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
  > Path to PROJ.4 shared files: C:/Program Files/R/R-2.13.1/library/rgdal/proj
  > Note: 'spcosa' requires Java (>= 6.0), which is available at www.java.com
  > This is mgcv 1.7-9. For overview type 'help("mgcv-package")'.
  > deldir 0.0-15
  >
  > Please note: The process for determining duplicated points
  16c23
  < spatstat 1.27-0
  ---
  > spatstat 1.24-1
  20a28,34
  > Attaching package: 'spatstat'
  >
  > The following object(s) are masked from 'package:ggplot2':
  >
  > rescale
  >
  >
  25c39
  < as.Date, as.Date.numeric
  ---
  > as.Date
  34,38d47
  < Geospatial Data Abstraction Library extensions to R successfully loaded
  < Loaded GDAL runtime: GDAL 1.7.2, released 2010/04/23
  < Path to GDAL shared files: /usr/local/share/gdal
  < Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
  < Path to PROJ.4 shared files: (autodetected)
  39a49,55
  > Attaching package: 'akima'
  >
  > The following object(s) are masked from 'package:ggplot2':
  >
  > interp
  >
  >
  45a62
  > There were 12 warnings (use warnings() to see them)
  Running ‘findLocalBias.R’ [10s/13s]
  Comparing ‘findLocalBias.Rout’ to ‘findLocalBias.Rout.save’ ...5,7d4
  < Note: 'spcosa' requires Java (>= 6.0), which is available at www.java.com
  < This is mgcv 1.7-16. For overview type 'help("mgcv-package")'.
  < deldir 0.0-19
  9,12c6
  < PLEASE NOTE: The components "delsgs" and "summary" of the
  < object returned by deldir() are now DATA FRAMES rather than
  < matrices (as they were prior to release 0.0-18).
  < See help("deldir").
  ---
  > Attaching package: 'reshape'
  14c8,21
  < PLEASE NOTE: The process for determining duplicated points
  ---
  > The following object(s) are masked from 'package:plyr':
  >
  > rename, round_any
  >
  > Geospatial Data Abstraction Library extensions to R successfully loaded
  > Loaded GDAL runtime: GDAL 1.7.2, released 2010/04/23
  > Path to GDAL shared files: C:/Program Files/R/R-2.13.1/library/rgdal/gdal
  > Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
  > Path to PROJ.4 shared files: C:/Program Files/R/R-2.13.1/library/rgdal/proj
  > Note: 'spcosa' requires Java (>= 6.0), which is available at www.java.com
  > This is mgcv 1.7-9. For overview type 'help("mgcv-package")'.
  > deldir 0.0-15
  >
  > Please note: The process for determining duplicated points
  17c24
  < spatstat 1.27-0
  ---
  > spatstat 1.24-1
  21a29,35
  > Attaching package: 'spatstat'
  >
  > The following object(s) are masked from 'package:ggplot2':
  >
  > rescale
  >
  >
  26c40
  < as.Date, as.Date.numeric
  ---
  > as.Date
  35,39d48
  < Geospatial Data Abstraction Library extensions to R successfully loaded
  < Loaded GDAL runtime: GDAL 1.7.2, released 2010/04/23
  < Path to GDAL shared files: /usr/local/share/gdal
  < Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
  < Path to PROJ.4 shared files: (autodetected)
  40a50,56
  > Attaching package: 'akima'
  >
  > The following object(s) are masked from 'package:ggplot2':
  >
  > interp
  >
  >
  46a63
  > There were 12 warnings (use warnings() to see them)
  101c118
  < NA's :2
  ---
  > NA's : 2.000
  Running ‘findRegionalBias.R’ [12s/15s]
  Comparing ‘findRegionalBias.Rout’ to ‘findRegionalBias.Rout.save’ ...5,7d4
  < Note: 'spcosa' requires Java (>= 6.0), which is available at www.java.com
  < This is mgcv 1.7-16. For overview type 'help("mgcv-package")'.
  < deldir 0.0-19
  9,12c6
  < PLEASE NOTE: The components "delsgs" and "summary" of the
  < object returned by deldir() are now DATA FRAMES rather than
  < matrices (as they were prior to release 0.0-18).
  < See help("deldir").
  ---
  > Attaching package: 'reshape'
  14c8,21
  < PLEASE NOTE: The process for determining duplicated points
  ---
  > The following object(s) are masked from 'package:plyr':
  >
  > rename, round_any
  >
  > Geospatial Data Abstraction Library extensions to R successfully loaded
  > Loaded GDAL runtime: GDAL 1.7.2, released 2010/04/23
  > Path to GDAL shared files: C:/Program Files/R/R-2.13.1/library/rgdal/gdal
  > Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
  > Path to PROJ.4 shared files: C:/Program Files/R/R-2.13.1/library/rgdal/proj
  > Note: 'spcosa' requires Java (>= 6.0), which is available at www.java.com
  > This is mgcv 1.7-9. For overview type 'help("mgcv-package")'.
  > deldir 0.0-15
  >
  > Please note: The process for determining duplicated points
  17c24
  < spatstat 1.27-0
  ---
  > spatstat 1.24-1
  21a29,35
  > Attaching package: 'spatstat'
  >
  > The following object(s) are masked from 'package:ggplot2':
  >
  > rescale
  >
  >
  26c40
  < as.Date, as.Date.numeric
  ---
  > as.Date
  35,39d48
  < Geospatial Data Abstraction Library extensions to R successfully loaded
  < Loaded GDAL runtime: GDAL 1.7.2, released 2010/04/23
  < Path to GDAL shared files: /usr/local/share/gdal
  < Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
  < Path to PROJ.4 shared files: (autodetected)
  40a50,56
  > Attaching package: 'akima'
  >
  > The following object(s) are masked from 'package:ggplot2':
  >
  > interp
  >
  >
  46a63
  > There were 12 warnings (use warnings() to see them)
  Running ‘optimizingTest.R’ [41s/48s]
  Comparing ‘optimizingTest.Rout’ to ‘optimizingTest.Rout.save’ ...7,9d6
  < Note: 'spcosa' requires Java (>= 6.0), which is available at www.java.com
  < This is mgcv 1.7-16. For overview type 'help("mgcv-package")'.
  < deldir 0.0-19
  11,14c8
  < PLEASE NOTE: The components "delsgs" and "summary" of the
  < object returned by deldir() are now DATA FRAMES rather than
  < matrices (as they were prior to release 0.0-18).
  < See help("deldir").
  ---
  > Attaching package: 'reshape'
  16c10,23
  < PLEASE NOTE: The process for determining duplicated points
  ---
  > The following object(s) are masked from 'package:plyr':
  >
  > rename, round_any
  >
  > Geospatial Data Abstraction Library extensions to R successfully loaded
  > Loaded GDAL runtime: GDAL 1.7.2, released 2010/04/23
  > Path to GDAL shared files: C:/Program Files/R/R-2.13.1/library/rgdal/gdal
  > Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
  > Path to PROJ.4 shared files: C:/Program Files/R/R-2.13.1/library/rgdal/proj
  > Note: 'spcosa' requires Java (>= 6.0), which is available at www.java.com
  > This is mgcv 1.7-9. For overview type 'help("mgcv-package")'.
  > deldir 0.0-15
  >
  > Please note: The process for determining duplicated points
  19c26
  < spatstat 1.27-0
  ---
  > spatstat 1.24-1
  23a31,37
  > Attaching package: 'spatstat'
  >
  > The following object(s) are masked from 'package:ggplot2':
  >
  > rescale
  >
  >
  28c42
  < as.Date, as.Date.numeric
  ---
  > as.Date
  37,41d50
  < Geospatial Data Abstraction Library extensions to R successfully loaded
  < Loaded GDAL runtime: GDAL 1.7.2, released 2010/04/23
  < Path to GDAL shared files: /usr/local/share/gdal
  < Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
  < Path to PROJ.4 shared files: (autodetected)
  42a52,58
  > Attaching package: 'akima'
  >
  > The following object(s) are masked from 'package:ggplot2':
  >
  > interp
  >
  >
  48a65
  > There were 12 warnings (use warnings() to see them)
  77c94
  < [1] 116.2338
  ---
  > [1] 116.2612
  132c149
  < [1] 116.3482
  ---
  > [1] 116.3774
  182,186c199,201
  < [1] 115.4555
  < Warning messages:
  < 1: 2 location(s) outside the target universe (as defined by 'object') have been found
  < These locations have been removed. 198 location(s) have been retained
  < 2: (Nearly) coinciding points have been removed.
  ---
  > [1] 115.505
  > Warning message:
  > (Nearly) coinciding points have been removed.
  208c223
  < [1] 116.2338
  ---
  > [1] 116.2612
  212c227
  < [1] 116.3482
  ---
  > [1] 116.3774
  219c234
  < [1] 115.4555
  ---
  > [1] 115.505
• checking PDF version of manual ... OK
  NOTE: There was 1 note.
  See
  ‘/home/ripley/R/packages/tests32/intamapInteractive.Rcheck/00check.log’
  for details.