Last updated on 2014-04-20 17:47:05.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 3.0 | 31.72 | 22.77 | 54.48 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 3.0 | 41.81 | 23.78 | 65.58 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 3.0 | 61.61 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 3.0 | 103.00 | NOTE | |||
| r-devel-macosx-x86_64-clang | 3.0 | 35.65 | OK | |||
| r-devel-macosx-x86_64-gcc | 2.7 | OK | ||||
| r-devel-windows-ix86+x86_64 | 2.7 | 141.00 | 44.00 | 185.00 | OK | |
| r-patched-linux-x86_64 | 2.7 | 42.78 | 21.62 | 64.40 | WARN | |
| r-patched-solaris-sparc | 3.0 | 505.60 | OK | |||
| r-patched-solaris-x86 | 3.0 | 142.10 | OK | |||
| r-release-linux-ix86 | ERROR | |||||
| r-release-linux-x86_64 | 2.7 | 41.65 | 21.35 | 63.00 | WARN | |
| r-release-macosx-x86_64 | 2.7 | OK | ||||
| r-release-windows-ix86+x86_64 | 3.0 | 120.00 | 44.00 | 164.00 | OK | |
| r-oldrel-windows-ix86+x86_64 | 3.0 | 115.00 | 53.00 | 168.00 | OK |
Version: 3.0
Check: installed package size
Result: NOTE
installed size is 8.0Mb
sub-directories of 1Mb or more:
libs 6.8Mb
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 2.7
Check: whether package can be installed
Result: WARNING
Found the following significant warnings:
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
See ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/seqminer.Rcheck/00install.out’ for details.
Flavor: r-patched-linux-x86_64
Version: 2.7
Check: installed package size
Result: NOTE
installed size is 9.5Mb
sub-directories of 1Mb or more:
libs 8.3Mb
Flavors: r-patched-linux-x86_64, r-release-linux-ix86, r-release-linux-x86_64
Version: 2.7
Check: whether package can be installed
Result: WARNING
Found the following significant warnings:
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
StringUtil.h:216:33: warning: ISO C++98 does not support the ‘%lf’ gnu_printf format [-Wformat=]
See ‘/home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/seqminer.Rcheck/00install.out’ for details.
Flavors: r-release-linux-ix86, r-release-linux-x86_64
Version: 2.7
Check: examples
Result: ERROR
Running examples in ‘seqminer-Ex.R’ failed
The error most likely occurred in:
> ### Name: annotateGene
> ### Title: Annotate a test variant
> ### Aliases: annotateGene
>
> ### ** Examples
>
> reference = system.file("tabanno/test.fa", package = "seqminer")
> refBase <- getRefBase(reference, chrom = c(1, 1), pos = c(1, 2), len = c(1, 1))
to open /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/seqminer/tabanno/test.fa
>
> param <- list(reference = system.file("tabanno/test.fa", package = "seqminer"),
+ geneFile = system.file("tabanno/test.gene.txt", package = "seqminer"))
> param <- makeAnnotationParameter(param)
> print(param)
$reference
[1] "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/seqminer/tabanno/test.fa"
$geneFile
[1] "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/seqminer/tabanno/test.gene.txt"
$geneFileFormat
[1] "refFlat"
$codonFile
[1] "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/seqminer/tabanno/codon.txt"
$priorityFile
[1] "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/seqminer/tabanno/priority.txt"
$upstreamRange
[1] 50
$downstreamRange
[1] 50
$spliceIntoExon
[1] 3
$spliceIntoIntron
[1] 8
> annotateGene(param, c("1", "1"), c(3, 5) , c("A", "C"), c("G", "C"))
Load reference genome /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/seqminer/tabanno/test.fa...
DONE: 1 chromosomes and 74 bases are loaded.
Load codon file /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/seqminer/tabanno/codon.txt...
DONE: codon file loaded.
Load priority file /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/seqminer/tabanno/priority.txt...
DONE: 25 priority annotation types loaded.
Load gene file /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/seqminer/tabanno/test.gene.txt...
DONE: 3 gene loaded from /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/seqminer/tabanno/test.gene.txt.
*** caught segfault ***
address (nil), cause 'memory not mapped'
Traceback:
1: .Call("annotateGene", param, chrom, position, ref, alt, PACKAGE = "seqminer")
2: annotateGene(param, c("1", "1"), c(3, 5), c("A", "C"), c("G", "C"))
aborting ...
Flavor: r-release-linux-ix86