Hi,
I am getting errors when i run aroma.affymetrix package for dynamic reports, it looks like for low level analysis, everything works well for now, Could you please take a closer look at and let me know what the problem is? I am running under the current directory(/foo/arom-anal/) > process(ae) Loading required package: R.rsp R.rsp v0.19.3 (2014-08-29) successfully loaded. See ?R.rsp for help. Attaching package: ‘R.rsp’ The following object is masked from ‘package:aroma.affymetrix’: getParameter The following objects are masked from ‘package:aroma.core’: getParameters, process, write The following objects are masked from ‘package:R.filesets’: getAttribute, getAttributes, getFile, getFileSize, getHeader, nbrOfLines, setAttribute, setAttributes The following objects are masked from ‘package:R.utils’: parse, parse.default The following objects are masked from ‘package:base’: flush, parse, stop, write The following object is masked _by_ package:aroma.affymetrix: writeCdf The following object is masked _by_ package:R.utils: findFiles 20140918 09:43:05|Color maps: 20140918 09:43:05|Chip type: RaGene-1_0-st-v1,r3 20140918 09:43:12|Samples: CS _ 10_(RaGene-1_0-st-v1),residuals, CS _ 12_(RaGene-1_0-st-v1),residuals, CS _ 7_(RaGene-1_0-st-v1),residuals, CS _ 8_(RaGene-1_0-st-v1),residuals, NS _ 1_(RaGene-1_0-st-v1),residuals, NS _ 3_(RaGene-1_0-st-v1),residuals, NS _ 4_(RaGene-1_0-st-v1),residuals, NS _ 5_(RaGene-1_0-st-v1),residuals 20140918 09:43:12|Aliases: CS _ 10_(RaGene-1_0-st-v1), CS _ 12_(RaGene-1_0-st-v1), CS _ 7_(RaGene-1_0-st-v1), CS _ 8_(RaGene-1_0-st-v1), NS _ 1_(RaGene-1_0-st-v1), NS _ 3_(RaGene-1_0-st-v1), NS _ 4_(RaGene-1_0-st-v1), NS _ 5_(RaGene-1_0-st-v1) 20140918 09:43:20|Color maps: 20140918 09:43:20|Chip type: RaGene-1_0-st-v1,r3 20140918 09:43:27|Samples: CS _ 10_(RaGene-1_0-st-v1),residuals, CS _ 12_(RaGene-1_0-st-v1),residuals, CS _ 7_(RaGene-1_0-st-v1),residuals, CS _ 8_(RaGene-1_0-st-v1),residuals, NS _ 1_(RaGene-1_0-st-v1),residuals, NS _ 3_(RaGene-1_0-st-v1),residuals, NS _ 4_(RaGene-1_0-st-v1),residuals, NS _ 5_(RaGene-1_0-st-v1),residuals 20140918 09:43:27|Aliases: CS _ 10_(RaGene-1_0-st-v1), CS _ 12_(RaGene-1_0-st-v1), CS _ 7_(RaGene-1_0-st-v1), CS _ 8_(RaGene-1_0-st-v1), NS _ 1_(RaGene-1_0-st-v1), NS _ 3_(RaGene-1_0-st-v1), NS _ 4_(RaGene-1_0-st-v1), NS _ 5_(RaGene-1_0-st-v1) [1] FALSE Warning messages: 1: In fcn(...) : Packages reordered in search path: package:affxparser 2: In parseRepos(sets = repos, where = where, fallback = fallback, : Had to fall back to a set of predefined repositories (please make sure to set your package repositories properly, cf. ?setRepositories): CRAN: ‘@CRAN@’ -> ‘http://cran.r-project.org’ 3: In is.na(x) : is.na() applied to non-(list or vector) of type 'NULL' 4: In writeImages.SpatialReporter(reporter, arrays = arrays, aliases = aliases, : No color maps specified. Nothing to do. 5: In parseRepos(sets = repos, where = where, fallback = fallback, : Had to fall back to a set of predefined repositories (please make sure to set your package repositories properly, cf. ?setRepositories): CRAN: ‘@CRAN@’ -> ‘http://cran.r-project.org’ 6: In is.na(x) : is.na() applied to non-(list or vector) of type 'NULL' > display(ae) > The file /foo/arom-anal/\foo\arom-anal\reports\tissues\RBC,QN,RMA\ArrayExplorer.html does not exist. Thanks a lot in advance, Sunghee -- -- When reporting problems on aroma.affymetrix, make sure 1) to run the latest version of the package, 2) to report the output of sessionInfo() and traceback(), and 3) to post a complete code example. You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group with website http://www.aroma-project.org/. To post to this group, send email to aroma-affymetrix@googlegroups.com To unsubscribe and other options, go to http://www.aroma-project.org/forum/ --- You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group. To unsubscribe from this group and stop receiving emails from it, send an email to aroma-affymetrix+unsubscr...@googlegroups.com. For more options, visit https://groups.google.com/d/optout.