- using R Under development (unstable) (2012-05-19 r59366)
- using platform: x86_64-unknown-linux-gnu (64-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 executable 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 loading without being on the library search path ... 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 ... WARNING
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 ... [8s/8s] OK
- checking for unstated dependencies in tests ... OK
- checking tests ... [50s/50s] OK
Running ‘anisotropyChoice.R’ [7s/7s]
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
8,11c5,9
< 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'
>
> The following object(s) are masked from 'package:plyr':
>
> rename, round_any
13c11,20
< PLEASE NOTE: The process for determining duplicated points
---
> 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
34,38c48,54
< Geospatial Data Abstraction Library extensions to R successfully loaded
< Loaded GDAL runtime: GDAL 1.7.3, released 2010/11/10
< Path to GDAL shared files: /usr/share/gdal/1.7
< Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
< Path to PROJ.4 shared files: (autodetected)
---
>
> 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’ [6s/6s]
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
8,11c5,9
< 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'
>
> The following object(s) are masked from 'package:plyr':
>
> rename, round_any
13c11,20
< PLEASE NOTE: The process for determining duplicated points
---
> 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
34,38c48,54
< Geospatial Data Abstraction Library extensions to R successfully loaded
< Loaded GDAL runtime: GDAL 1.7.3, released 2010/11/10
< Path to GDAL shared files: /usr/share/gdal/1.7
< Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
< Path to PROJ.4 shared files: (autodetected)
---
>
> 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’ [6s/6s]
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
9,12c6,10
< 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'
>
> The following object(s) are masked from 'package:plyr':
>
> rename, round_any
14c12,21
< PLEASE NOTE: The process for determining duplicated points
---
> 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
35,39c49,55
< Geospatial Data Abstraction Library extensions to R successfully loaded
< Loaded GDAL runtime: GDAL 1.7.3, released 2010/11/10
< Path to GDAL shared files: /usr/share/gdal/1.7
< Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
< Path to PROJ.4 shared files: (autodetected)
---
>
> 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’ [6s/6s]
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
9,12c6,10
< 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'
>
> The following object(s) are masked from 'package:plyr':
>
> rename, round_any
14c12,21
< PLEASE NOTE: The process for determining duplicated points
---
> 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
35,39c49,55
< Geospatial Data Abstraction Library extensions to R successfully loaded
< Loaded GDAL runtime: GDAL 1.7.3, released 2010/11/10
< Path to GDAL shared files: /usr/share/gdal/1.7
< Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
< Path to PROJ.4 shared files: (autodetected)
---
>
> 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’ [24s/24s]
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
11,14c8,12
< 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'
>
> The following object(s) are masked from 'package:plyr':
>
> rename, round_any
16c14,23
< PLEASE NOTE: The process for determining duplicated points
---
> 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
37,41c51,57
< Geospatial Data Abstraction Library extensions to R successfully loaded
< Loaded GDAL runtime: GDAL 1.7.3, released 2010/11/10
< Path to GDAL shared files: /usr/share/gdal/1.7
< Loaded PROJ.4 runtime: Rel. 4.7.1, 23 September 2009, [PJ_VERSION: 470]
< Path to PROJ.4 shared files: (autodetected)
---
>
> 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
WARNING: There was 1 warning.
See
‘/home/hornik/tmp/R.check/r-devel/Work/PKGS/intamapInteractive.Rcheck/00check.log’
for details.