search for: storagemode

Hello, I'm wondering how I can merge two featuresets into one. My dataset is two sets of microarray data and it looks like followings: > rawData $v1 TilingFeatureSet (storageMode: lockedEnvironment) assayData: 2197815 features, 59 samples element names: channel1, channel2 protocolData rowNames: LT290677RU_D1_2011-02-16 LT286300LU_D1_2010-07-24 ... LT003990RU_D1_2010-11-04 (59 total) varLabels: filenamesChannel1 filenamesChannel2 dates1 dates2 varMetadata: labe...

...gt; "Changes in print.*() ...." > >> > >> Thank you Bill, for reporting.... > >> > >> It's amazing this has not been detected earlier by anybody. > >> > >> I think it is *only* for functions, not general > >> print.<storagemode>() as you were suggesting - right? > >> > >> Martin > >> > > > > [[alternative HTML version deleted]] > > > > ______________________________________________ > > R-devel at r-project.org mailing list > > https://stat.ethz.ch/mai...

.... > > ... Related to the NEWS entries which start > > "Changes in print.*() ...." > > Thank you Bill, for reporting.... > > It's amazing this has not been detected earlier by anybody. > > I think it is *only* for functions, not general > print.<storagemode>() as you were suggesting - right? > > Martin > [[alternative HTML version deleted]]

...gt; dispatch. I'd be happy to send a patch for this, if it makes sense. >> Best, >> Lionel I'd rather we'd work towards the goal that auto printing and print() should result in identical output : 1) for unclassed basic objects, i.e., what Bill meant with print.<storageMode> where maybe print.<typeof> would be a slightly better name; 2) for S3 classed objects; 3) for S4 classed objects with no print() method (but possibly a show() one). Adding an option for autoprinting would render R even less strictly functional, depending on yet another powerful gl...

In R-3.6.0 autoprinting was changed so that print methods for the storage modes are not called when there is no explicit class attribute. E.g., % R-3.6.0 --vanilla --quiet > print.function <- function(x, ...) { cat("Function with argument list "); cat(sep="\n ", head(deparse(args(x)), -1)); invisible(x) } > f <- function(x, ...) { sum( x * seq_along(x) ) }

...0.74 U Male Control 0.35 V Female Control 0.77 W Male Control 0.27 X Male Control 0.98 Y Female Case 0.94 Z Female Case 0.32 # now the sample use > (subset1 =subset(expressionSet,sex="Male",type="Control")) 7 columns selected (C F J R U W X) ExpressionSet (storageMode: lockedEnvironment) assayData: 500 features, 7 samples element names: exprs, se.exprs phenoData sampleNames: C, F, ..., X (7 total) varLabels and varMetadata description: sex: Female/Male type: Case/Control score: Testing Score featureData featureNames: AFFX-MurIL2_at, AFFX-Mur...

...ros-GAPDH_5_at ratio gapdh3/gapdhM AFFX-Dros-GAPDH_3_at AFFX-Dros-GAPDH_M_at this I copied as drosophila2cdf.qcdef to the cirectory: ../R/x86_64-pc-linux-gnu-library/2.12/simpleaffy/extdata/drosgenome2cdf.qcdef I than try to run the analysis again: > data <- ReadAffy() > data AffyBatch (storageMode: lockedEnvironment) assayData: NA features, NA samples element names: exprs protocolData sampleNames: 10_w1h_021110.CEL 11_wbh_021110.CEL ... 9_dch_021110.CEL (12 total) varLabels: ScanDate varMetadata: labelDescription phenoData sampleNames: 10_w1h_021110.CEL 11_wbh_021110.CEL ... 9_...

...ries which start >> >> "Changes in print.*() ...." >> >> Thank you Bill, for reporting.... >> >> It's amazing this has not been detected earlier by anybody. >> >> I think it is *only* for functions, not general >> print.<storagemode>() as you were suggesting - right? >> >> Martin >> > > [[alternative HTML version deleted]] > > ______________________________________________ > R-devel at r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-devel