[BioC] Rtracklayer and track/table names

[Gustavo Fernández Bayón]

Hi everybody.

I am currently using rtracklayer a lot, but I am experiencing some 
problems with the names of the trackas and tables. For example, I wanted 
to query the NKI Lads track, which is a hg18 liftover available from the 
UCSC browser. I do the following:

 > s <- browserSession()
 > genome(s) <- 'hg19'
 > tn <- trackNames(s)
 > tn[grep('lamin', tn)]
NKI Nuc Lamina...
    "laminB1Super"
 > query <- ucscTableQuery(s, track='laminB1Super')
Error en normArgTrack(track, trackids) : Unknown track: laminB1Super

This has happened to me several times, specially when the track names 
contain the 'Super' string. I guess this represents the concept of 
supertracks that I have previously seen in the browser. With other 
tracks, Broad Histone for example, I experienced the same problem but 
was able to find a workaround by inspecting the table names in the 
browser, and then discovering there were actual tracks and tables 
corresponding to them. Problem is, I cannot do that with the NKI Lads track.

Is there any way to circumvent this problem? What are the 'Super' track 
names intended for?

Any hint or advice will be appreciated (a lot)

Regards,
Gus

PS: I nearly forgot my sessionInfo(). Here it is:

 > sessionInfo()
R version 2.15.2 (2012-10-26)
Platform: x86_64-pc-linux-gnu (64-bit)

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

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

other attached packages:
[1] rtracklayer_1.18.2   GenomicRanges_1.10.6 IRanges_1.16.4
[4] BiocGenerics_0.4.0   ggbio_1.6.6          ggplot2_0.9.3

loaded via a namespace (and not attached):
  [1] AnnotationDbi_1.20.3    Biobase_2.18.0 biomaRt_2.14.0
  [4] Biostrings_2.26.3       biovizBase_1.6.2 bitops_1.0-5
  [7] BSgenome_1.26.1         cluster_1.14.3 colorspace_1.2-1
[10] DBI_0.2-5               dichromat_2.0-0 digest_0.6.2
[13] GenomicFeatures_1.10.1  grid_2.15.2 gridExtra_0.9.1
[16] gtable_0.1.2            Hmisc_3.10-1 labeling_0.1
[19] lattice_0.20-13         MASS_7.3-23 munsell_0.4
[22] parallel_2.15.2         plyr_1.8 proto_0.3-10
[25] RColorBrewer_1.0-5      RCurl_1.95-3 reshape2_1.2.2
[28] Rsamtools_1.10.2        RSQLite_0.11.2 scales_0.2.3
[31] stats4_2.15.2           stringr_0.6.2 tools_2.15.2
[34] VariantAnnotation_1.4.7 XML_3.95-0.1            zlibbioc_1.4.0