Please ignore this request for help. I read the release notes and installed the png package. Sorry to raise a flag without a thorough investigation of the obvious first.
Thanks, Dick On Thu, Feb 24, 2011 at 10:52 AM, Richard Beyer <rpbe...@gmail.com> wrote: > I recently updated my system to the latest aroma, and now something that > worked in the last version is not working now. > > I use a script originally from Mark Robinson called doEverything. That > seems just fine, all my usual steps work. I can use plotRle and plotNuse > just fine. When I get to the ArrayExplorer section in order to try to > generate array images of the residuals I get the no png error. I also tried > this after doing library(grDevices) to make sure png() was available. > > > > library(grDevices) > > rs <- e.AndersonRat1$res > > ae <- ArrayExplorer(rs) > > setColorMaps(ae, c("log2,log2pos,rainbow")) > > process(ae, interleaved="auto") > Interleaving image... > z: > num [1:1050, 1:1050] NA NA NA NA NA NA NA NA NA NA ... > - attr(*, "...instantiationTime")= POSIXct[1:1], format: "2011-02-24 > 10:50:17" > Infering horizontal, vertical, or no interleaving... > hOdd=0.81 > hEven=0.81 > hRatio=0.0013 > vOdd=0.81 > vEven=0.81 > vRatio=-2.5e-05 > what: none > Infering horizontal, vertical, or no interleaving...done > Interleaving image...done > Error in loadNamespace(name) : there is no package called 'png' > > > > sessionInfo() > R version 2.12.1 (2010-12-16) > Platform: x86_64-redhat-linux-gnu (64-bit) > > locale: > [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C > LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 LC_MONETARY=C > [6] LC_MESSAGES=en_US.UTF-8 LC_PAPER=en_US.UTF-8 > LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C > [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C > > attached base packages: > [1] stats graphics grDevices datasets utils methods base > > other attached packages: > [1] abind_1.1-0 limma_3.6.6 preprocessCore_1.12.0 > affyio_1.18.0 Biobase_2.10.0 aroma.affymetrix_2.0.0 > [7] aroma.apd_0.1.8 affxparser_1.22.0 R.huge_0.2.2 > aroma.core_2.0.0 aroma.light_1.18.3 matrixStats_0.2.2 > [13] R.rsp_0.4.2 R.cache_0.4.0 R.filesets_0.9.2 > digest_0.4.2 R.utils_1.6.2 R.oo_1.7.5 > [19] EBImage_3.6.0 affy_1.28.0 R.methodsS3_1.2.1 > > loaded via a namespace (and not attached): > [1] tools_2.12.1 > > > I would be very grateful for any suggestions or help, > > Thanks, > Dick > > ******************************************************************************* > Richard P. Beyer, Ph.D. University of Washington > Tel.:(206) 616 7378 Env. & Occ. Health Sci. , Box 354695 > Fax: (206) 685 4696 4225 Roosevelt Way NE, # 100 > Seattle, WA 98105-6099 > http://depts.washington.edu/ceeh/members_fc_bioinfo.html > http://staff.washington.edu/~dbeyer > > ******************************************************************************* > > -- 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/