[Bioc-sig-seq] matchPDict error

burak kutlu burak_kutlu at yahoo.com
Fri Feb 27 19:26:25 CET 2009


Hi
I am trying to use matchPDict() and here's the error I get: This happens with my objects as well, but I am showing the vignette example below. 
thanks in advance
-burak

# I've made ce2dict0 was corectly created
> ce2dict0cw15 <- DNAStringSet(ce2dict0, end=15)
> runAnalysis2(ce2dict0cw15, outfile="ce2dict0cw15_ana2.txt")

Target: strand + of ce2 chromosomes chrI, chrII, chrIII, chrIV, chrV, chrX, chrM
>>> Finding all hits in strand + of chromosome chrI ...
Error in initialize(value, ...) :
  invalid names for slots of class "ByName_MIndex": length


> sessionInfo()
R version 2.8.1 (2008-12-22)
x86_64-unknown-linux-gnu

locale:
LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C

attached base packages:
[1] grDevices datasets  splines   graphics  stats     utils     tools
[8] methods   base

other attached packages:
 [1] BSgenome.Celegans.UCSC.ce2_1.3.11 BSgenome_1.10.3
 [3] Biostrings_2.10.16                IRanges_1.0.12
 [5] simpleaffy_2.18.0                 gcrma_2.14.1
 [7] matchprobes_1.14.1                genefilter_1.22.0
 [9] survival_2.34-1                   affy_1.20.0
[11] Biobase_2.2.1

loaded via a namespace (and not attached):
[1] affyio_1.10.1        annotate_1.20.1      AnnotationDbi_1.4.2
[4] DBI_0.2-4            grid_2.8.1           lattice_0.17-17
[7] Matrix_0.999375-17   preprocessCore_1.4.0 RSQLite_0.7-1



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