Genominator 1.1.1
James Bullard
| Bioconductor Changelog | | Snapshot Date: 2009-12-07 11:32:00 -0800 (Mon, 07 Dec 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Genominator | | Last Changed Rev: 43247 / Revision: 43434 | | Last Changed Date: 2009-11-24 18:42:11 -0800 (Tue, 24 Nov 2009) |
| wilson1 | Linux (openSUSE 11.1) / x86_64 | ERROR | skipped | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | ERROR | skipped | skipped |
| pitt | Mac OS X Tiger (10.4.11) / i386 | ERROR | skipped | skipped |
| pelham | Mac OS X Leopard (10.5.8) / i386 | [ ERROR ] | skipped | skipped |
* checking for file 'Genominator/DESCRIPTION' ... OK
* preparing 'Genominator':
* checking DESCRIPTION meta-information ... OK
* installing the package to re-build vignettes
* installing *source* package ‘Genominator’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: DBI
Creating a new generic function for "head" in "Genominator"
** help
*** installing help indices
** building package indices ...
* DONE (Genominator)
* creating vignettes ... ERROR
Loading required package: RSQLite
Loading required package: DBI
writing regions table: 0.044 sec
SQL query: SELECT counts,feature FROM counts_tbl INNER JOIN __regions__ ON __regions__.chr = counts_tbl.chr AND counts_tbl.location BETWEEN __regions__.start AND __regions__.end__1 AND (counts_tbl.strand = __regions__.strand OR __regions__.strand = 0 OR counts_tbl.strand = 0)
fetching merge table: 0.033 sec
splitting by: feature: 0.002 sec
matplot: doing 1 plots with col= ("1") pch= ("1" "2" "3" "4" "5" "6" "7" "8" "9" "0" "a" "b" "c" "d" "e" "f" "g" "h" "i" "j" "k" "l" "m" "n" "o" "p" "q" "r" "s" "t" "u" "v" "w" "x" "y" "z" "A" "B" "C" "D" "E" "F" "G" "H" "I" "J" "K" "L" "M" "N" "O" "P" "Q" "R" "S" "T" "U" "V" "W" "X" "Y" "Z") ...
writing regions table: 0.042 sec
SQL query: SELECT __regions__.id, TOTAL(counts) FROM __regions__ LEFT OUTER JOIN counts_tbl ON __regions__.chr = counts_tbl.chr AND counts_tbl.location BETWEEN __regions__.start AND __regions__.end__1 AND (counts_tbl.strand = __regions__.strand OR __regions__.strand = 0 OR counts_tbl.strand = 0) GROUP BY __regions__.id ORDER BY __regions__.id
fetching summary table: 0.063 sec
fetching summary: 0.018 sec
matplot: doing 1 plots with col= ("1") pch= ("1" "2" "3" "4" "5" "6" "7" "8" "9" "0" "a" "b" "c" "d" "e" "f" "g" "h" "i" "j" "k" "l" "m" "n" "o" "p" "q" "r" "s" "t" "u" "v" "w" "x" "y" "z" "A" "B" "C" "D" "E" "F" "G" "H" "I" "J" "K" "L" "M" "N" "O" "P" "Q" "R" "S" "T" "U" "V" "W" "X" "Y" "Z") ...
writing regions table: 0.044 sec
SQL query: SELECT __regions__.id, TOTAL(counts_1), TOTAL(counts_2) FROM __regions__ LEFT OUTER JOIN allcounts ON __regions__.chr = allcounts.chr AND allcounts.location BETWEEN __regions__.start AND __regions__.end__1 AND (allcounts.strand = __regions__.strand OR __regions__.strand = 0 OR allcounts.strand = 0) GROUP BY __regions__.id ORDER BY __regions__.id
fetching summary table: 0.068 sec
Loading required package: GenomeGraphs
Loading required package: biomaRt
Loading required package: grid
Error: processing vignette 'plotting.Rnw' failed with diagnostics:
chunk 4
Error in .nextMethod(.Object = .Object, ...) :
invalid names for slots of class "BaseTrack": segmentation
Execution halted