I would like to load ApoAI.RData. During the operation of reading this data an error occurs. There is also a problem with STF file. > library (limma) > load("ApoAI.RData") Warning message: 'RG' looks like a pre-2.4.0 S4 object: please recreate it > objects() [1] "RG" > names(RG) [1] "R" "G" "Rb" "Gb" "printer" "genes" "targets" > RG$targets FileName Cy3 Cy5 c1 a1koc1.spot Pool C57BL/6 c2 a1koc2.spot Pool C57BL/6 c3 a1koc3.spot Pool C57BL/6 c4 a1koc4.spot Pool C57BL/6 c5 a1koc5.spot Pool C57BL/6 c6 a1koc6.spot Pool C57BL/6 c7 a1koc7.spot Pool C57BL/6 c8 a1koc8.spot Pool C57BL/6 k1 a1kok1.spot Pool ApoAI-/- k2 a1kok2.spot Pool ApoAI-/- k3 a1kok3.spot Pool ApoAI-/- k4 a1kok4.spot Pool ApoAI-/- k5 a1kok5.spot Pool ApoAI-/- k6 a1kok6.spot Pool ApoAI-/- k7 a1kok7.spot Pool ApoAI-/- k8 a1kok8.spot Pool ApoAI-/- > spottypes=readSpotTypes("ApoAISpotTypes.txt") > spottypes SpotType ID Name Color 1 cDNA * * black 2 BLANK BLANK * brown 3 Blank Blank * orange 4 Control Control * blue > RG$genes$Status=controlStatus(spottypes, RG) Matching patterns for: Error in matrix(unlist(value, recursive = FALSE, use.names = FALSE), nrow = nr, : attempt to set an attribute on NULL Thank you for your help. Regars, B.

supply result of sessionInfo() -- undoubtedly you have outdated packages installed. to work with the current image and get efficient support from this list, use R 2.9 and install packages using biocLite. do not cross-post to r-help. On Wed, May 6, 2009 at 12:53 PM, Barbara Cegielska <barceg@ibch.poznan.pl>wrote: > I would like to load ApoAI.RData. During the operation of reading this data > an error occurs. There is also a problem with STF file. > > > library (limma) > > load("ApoAI.RData") > Warning message: > 'RG' looks like a pre-2.4.0 S4 object: please recreate it > > objects() > [1] "RG" > > names(RG) > [1] "R" "G" "Rb" "Gb" "printer" "genes" "targets" > > RG$targets > FileName Cy3 Cy5 > c1 a1koc1.spot Pool C57BL/6 > c2 a1koc2.spot Pool C57BL/6 > c3 a1koc3.spot Pool C57BL/6 > c4 a1koc4.spot Pool C57BL/6 > c5 a1koc5.spot Pool C57BL/6 > c6 a1koc6.spot Pool C57BL/6 > c7 a1koc7.spot Pool C57BL/6 > c8 a1koc8.spot Pool C57BL/6 > k1 a1kok1.spot Pool ApoAI-/- > k2 a1kok2.spot Pool ApoAI-/- > k3 a1kok3.spot Pool ApoAI-/- > k4 a1kok4.spot Pool ApoAI-/- > k5 a1kok5.spot Pool ApoAI-/- > k6 a1kok6.spot Pool ApoAI-/- > k7 a1kok7.spot Pool ApoAI-/- > k8 a1kok8.spot Pool ApoAI-/- > > spottypes=readSpotTypes("ApoAISpotTypes.txt") > > spottypes > SpotType ID Name Color > 1 cDNA * * black > 2 BLANK BLANK * brown > 3 Blank Blank * orange > 4 Control Control * blue > > RG$genes$Status=controlStatus(spottypes, RG) > Matching patterns for: Error in matrix(unlist(value, recursive = FALSE, > use.names = FALSE), nrow = nr, : > attempt to set an attribute on NULL > > Thank you for your help. > > Regars, > B. > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > -- Vincent Carey, PhD Biostatistics, Channing Lab 617 525 2265 [[alternative HTML version deleted]]