Hi Herve,

I have updated to IRanges 1.20.4 now, but unfortunately, I still encounter
an error when I try to subset a CompressedRleList or SimpleRleList with
a CompressedIRangesList or SimpleIRangesList.

Would you mind having a look at where I am going wrong ? (My two example
objects are available in the rdata object at the url shown below).

con=url("http://dl.dropboxusercontent.com/u/126180/example.rdata")
load( con )
return_rles[ keep_ranges ]

Error in subsetListByList(x, i) (from List-class.R#205) :
  cannot subscript an unnamed list-like object by a named list-like object

R version 3.0.2 (2013-09-25)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
 [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

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

other attached packages:
 [1] trimPrimers_1.3.0    Rsamtools_1.14.1     Biostrings_2.30.0
 [4] GenomicRanges_1.14.2 XVector_0.2.0        IRanges_1.20.4
 [7] BiocGenerics_0.8.0   Defaults_1.1-1       BiocInstaller_1.12.0
[10] roxygen2_2.2.2       digest_0.6.3         devtools_1.3

loaded via a namespace (and not attached):
 [1] bitops_1.0-6   brew_1.0-6     compiler_3.0.2 evaluate_0.5.1 httr_0.2
 [6] memoise_0.1    RCurl_1.95-4.1 stats4_3.0.2   stringr_0.6.2  tools_3.0.2
[11] whisker_0.3-2  zlibbioc_1.8.0

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