Hi 

I updated to rtracklayer_1.10.1, but I still get the same error.


> sessionInfo()
R version 2.12.0 Patched (2010-10-19 r53373)
Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)
locale:
[1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     
other attached packages:
[1] GenomicFeatures_1.2.0 GenomicRanges_1.2.0   IRanges_1.8.1         
rtracklayer_1.10.1    RCurl_1.4-3           bitops_1.0-4.1       

loaded via a namespace (and not attached):
[1] Biobase_2.10.0    biomaRt_2.6.0     Biostrings_2.18.0 BSgenome_1.18.0   
DBI_0.2-5         RSQLite_0.9-2     tools_2.12.0      XML_3.2-0        

> 


________________________________
From: Michael Lawrence <lawrence.michael@gene.com>

Cc: bioconductor@stat.math.ethz.ch
Sent: Wed, October 27, 2010 3:48:34 PM
Subject: Re: [BioC] makeTranscriptDbFromUCSC: ... Error: Request-URI Too Large

Please try updating your rtracklayer.

Michael




Hi
>Is there a maximum length for  transcript_ids in the makeTranscriptDbFromUCSC()
>function?
>I get the following error only when length(transcript_ids) > 420
>
>> makeTranscriptDbFromUCSC(genome="hg18", tablename="knownGene", 
transcript_ids=
>>transcript_ids)
>Download the knownGene table ... Error: Request-URI Too Large
>
>Thanks
>Joseph
>
>> sessionInfo()
>R version 2.12.0 Patched (2010-10-19 r53373)
>Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)
>locale:
>[1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
>attached base packages:
>[1] stats     graphics  grDevices utils     datasets  methods   base
>other attached packages:
>[1] GenomicFeatures_1.2.0 GenomicRanges_1.2.0   IRanges_1.8.0
>loaded via a namespace (and not attached):
> [1] Biobase_2.10.0     biomaRt_2.6.0      Biostrings_2.18.0  BSgenome_1.18.0
>DBI_0.2-5          RCurl_1.4-3        RSQLite_0.9-2      rtracklayer_1.10.0
>tools_2.12.0       XML_3.2-0
>
>>
>
>
>
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>
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