[BioC] (no subject)

[rinku saha]

1)I installed R-1.7.0  in Sgi machine(irix6.5).I installed all the
> > bioconductor packages too.
> > After that i did put all my >cel files under one directory and then move
> > into that directory and Start  R.Then i gave library(affy) to load it.
> > Welcome to Bioconductor
> >   To view some introductory material.........
> >    Simply type.......
> >   Creating a new  generic function for "summary" in package
> > Biobase
> > {1} TRUE
> >
> > My question is did it reall yy load the package affy.
> >
> > 2)When  i write data <-ReadAffy()
> > it gives these:
> >
> > 1: the condition has length > 1 and only the first element will be used 
>in:
> > if (dim(intensity(cel)) != dim.intensity) stop(paste("CEL file dimension
> > mismatch !\n(file",
> >
> > My question is how can i make it work to read my .cel file.
> > I am sending you an example .cel file
> > [CEL]
> > Version=3
> >
> > [HEADER]
> > Cols=536
> > Rows=536
> > TotalX=536
> > TotalY=536
> > OffsetX=0
> > OffsetY=0
> > GridCornerUL=237 234
> > GridCornerUR=4492 243
> > GridCornerLR=4490 4508
> > GridCornerLL=235 4499
> > Axis-invertX=0
> > AxisInvertY=0
> > swapXY=0
> > DatHeader=[73..46225]  MG2000062256AA:CLS=4733 RWS=4733 XIN=3  YIN=3  
>VE=17
> >        2.0 06/22/ 0 11:15:55      GridVerify=Success   Hu6800.1sq
> >                 6
> > Algorithm=Percentile
> > 
>AlgorithmParameters=Percentile:75;CellMargin:2;OutlierHigh:1.500;OutlierLow:1.004
> >
> > [INTENSITY]
> > NumberCells=287296
> > CellHeader=X	Y	MEAN	STDV	NPIXELS
> >   0	  0	1447.3	294.2	 36
> >   1	  0	34282.8	4017.5	 36
> >   2	  0	1528.0	244.9	 36
> >   3	  0	33889.3	4679.7	 36
> >   4	  0	1073.5	211.4	 36
> >   5	  0	1493.8	235.2	 36
> >   6	  0	26558.8	5903.9	 36
> >   7	  0	1557.5	259.3	 36
> >   8	  0	25951.8	3178.6	 30
> >   9	  0	1497.0	292.3	 36
> > 10	  0	26122.8	3989.7	 36
> > 11	  0	1577.3	271.9	 36
> > 12	  0	25029.8	4386.5	 36
> > 13	  0	1454.8	229.0	 36
> > 14	  0	25128.5	5666.1	 36
> > 15	  0	1602.0	242.9	 36
> > 16	  0	26180.0	6859.9	 36
> > 17	  0	1652.8	304.7	 36
> > 18	  0	26311.8	7985.2	 36
> > 19	  0	1655.0	295.9	 36
> > 20
> >
> >
> >
> > 3)when i try to load tcl/tk  it says:
> > Loading required package: tcltk
> > Error in firstlib(which.lib.loc, package) :
> >         Tcl/Tk support is not available on this syError: syntax error
> > Please do help me out.
> >
> > Thanks
> > RInku
> >
> > _________________________________________________________________
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> >
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> >
>
>

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