a4Base 1.7.0
Tobias Verbeke
| Snapshot Date: 2013-01-15 17:01:14 -0800 (Tue, 15 Jan 2013) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/a4Base | | Last Changed Rev: 70435 / Revision: 72575 | | Last Changed Date: 2012-10-12 07:30:13 -0700 (Fri, 12 Oct 2012) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | WARNINGS | |
| lamb2 | Linux (openSUSE 11.4) / x86_64 | OK | [ WARNINGS ] | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | WARNINGS | OK |
| petty | Mac OS X Leopard (10.5.8) / i386 | OK | WARNINGS | OK |
* using log directory ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/a4Base.Rcheck’
* using R Under development (unstable) (2012-12-17 r61365)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘a4Base/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘a4Base’ version ‘1.7.0’
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: ‘gridSVG’
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘a4Base’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 ... WARNING
Foreign function call with ‘PACKAGE’ argument in a base package:
.C("bincode", ..., PACKAGE = "base")
Packages should not make .C/.Call/.Fortran calls to base packages. They
are not part of the API, for use only by R itself and subject to change
without notice.
* checking R code for possible problems ... NOTE
a4palette: warning in rgb(9, 53, 122, alpha = alpha, max = 255):
partial argument match of 'max' to 'maxColorValue'
a4palette: warning in rgb(42, 142, 191, alpha = alpha, max = 255):
partial argument match of 'max' to 'maxColorValue'
a4palette: warning in rgb(148, 198, 223, alpha = alpha, max = 255):
partial argument match of 'max' to 'maxColorValue'
a4palette: warning in rgb(35, 125, 38, alpha = alpha, max = 255):
partial argument match of 'max' to 'maxColorValue'
a4palette: warning in rgb(127, 195, 28, alpha = alpha, max = 255):
partial argument match of 'max' to 'maxColorValue'
a4palette: warning in rgb(191, 225, 141, alpha = alpha, max = 255):
partial argument match of 'max' to 'maxColorValue'
heatmap.expressionSet: warning in grid.layout(nrow = heatmap.grid.nrow,
ncol = heatmap.grid.ncol, width = grid.layout.col.widths, heights =
grid.layout.row.heights): partial argument match of 'width' to
'widths'
heatmap.expressionSet: warning in grid.layout(nrow = 1, ncol = 5, width
= unit(c(1, 1, 30, legend.width[1], 1), c("null", "grobwidth",
"points", attr(legend.width, "unit"), "null"), c(vector(mode =
"list", length = 1), list(title.toplot.grob), vector(mode = "list",
length = 3)))): partial argument match of 'width' to 'widths'
plotLogRatio: warning in viewport(x = 0, y = 0, w = 1, h = 1, just =
c("left", "bottom"), layout = grid.layout(nrow = nr + 14, ncol = 1)):
partial argument match of 'w' to 'width'
plotLogRatio: warning in viewport(x = 0, y = 0, w = 1, h = 1, just =
c("left", "bottom"), layout = grid.layout(nrow = nr + 14, ncol = 1)):
partial argument match of 'h' to 'height'
replicates: warning in vector("numeric", len = length(x)): partial
argument match of 'len' to 'length'
plotLogRatio: no visible global function definition for ‘JavaGD’
plotLogRatio: no visible global function definition for ‘grid.garnish’
plotLogRatio: no visible global function definition for
‘grid.hyperlink’
plotLogRatio: no visible global function definition for ‘grid.script’
plotLogRatio: no visible global function definition for ‘gridToSVG’
* 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 ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
spectralMap 30.574 0.488 31.311
computeLogRatio 18.061 0.300 19.175
plotLogRatio 17.861 0.276 18.730
* checking PDF version of manual ... OK
WARNING: There was 1 warning.
NOTE: There were 2 notes.
See
‘/loc/home/biocbuild/bbs-2.12-bioc/meat/a4Base.Rcheck/00check.log’
for details.