Hi Stefan, perhaps Steffen (cc'ed here) who's the biomaRt expert would like to help out with that
a On Fri, Jun 15, 2012 at 10:42 AM, Stefan Kroeger <[email protected]> wrote: > Hi, since a few days I got the following problem, when trying to use > biomaRt service in R: > > > library(biomaRt) > > listMarts() > Opening and ending tag mismatch: link line 6 and head > Opening and ending tag mismatch: br line 17 and div > Opening and ending tag mismatch: br line 17 and td > Opening and ending tag mismatch: div line 17 and tr > Opening and ending tag mismatch: img line 24 and td > Opening and ending tag mismatch: td line 23 and tr > Opening and ending tag mismatch: td line 92 and tr > Opening and ending tag mismatch: tr line 91 and tbody > Opening and ending tag mismatch: tr line 21 and table > Opening and ending tag mismatch: img line 16 and body > Opening and ending tag mismatch: td line 15 and html > Premature end of data in tag tr line 14 > Premature end of data in tag tbody line 13 > Premature end of data in tag table line 12 > Premature end of data in tag body line 10 > Premature end of data in tag meta line 4 > Premature end of data in tag head line 3 > Premature end of data in tag html line 2 > Fehler: 1: Opening and ending tag mismatch: link line 6 and head > 2: Opening and ending tag mismatch: br line 17 and div > 3: Opening and ending tag mismatch: br line 17 and td > 4: Opening and ending tag mismatch: div line 17 and tr > 5: Opening and ending tag mismatch: img line 24 and td > 6: Opening and ending tag mismatch: td line 23 and tr > 7: Opening and ending tag mismatch: td line 92 and tr > 8: Opening and ending tag mismatch: tr line 91 and tbody > 9: Opening and ending tag mismatch: tr line 21 and table > 10: Opening and ending tag mismatch: img line 16 and body > 11: Opening and ending tag mismatch: td line 15 and html > 12: Premature end of data in tag tr line 14 > 13: Premature end of data in tag tbody line 13 > 14: Premature end of data in tag table line 12 > 15: Premature end of data in tag body line 10 > 16: Premature end of data in tag meta line 4 > 17: Premature end of data in tag head line 3 > 18: Premature end of data in tag html line 2 > > > same happens when executing: > > mart <- useMart("ensembl", dataset = "mmusculus_gene_ensembl") > > > I don't have any idea what's the problem. > - I already recompiled/reinstalled: RCurl, bitops, biomaRt > - I can access martview web services > > Can anybody help? > > Thanks > Stefan > > > Addiotionally my current sessionInfo() > > sessionInfo() > R version 2.15.0 (2012-03-30) > Platform: x86_64-unknown-linux-gnu (64-bit) > > locale: > [1] LC_CTYPE=de_DE.UTF-8 LC_NUMERIC=C > [3] LC_TIME=de_DE.UTF-8 LC_COLLATE=de_DE.UTF-8 > [5] LC_MONETARY=de_DE.UTF-8 LC_MESSAGES=de_DE.UTF-8 > [7] LC_PAPER=C LC_NAME=C > [9] LC_ADDRESS=C LC_TELEPHONE=C > [11] LC_MEASUREMENT=de_DE.UTF-8 LC_IDENTIFICATION=C > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > other attached packages: > [1] biomaRt_1.14.1 RCurl_1.91-1 bitops_1.0-4.1 xps_1.16.0 > > loaded via a namespace (and not attached): > [1] tools_2.15.0 XML_3.9-4 > ______________________________**_________________ > Users mailing list > [email protected] > https://lists.biomart.org/**mailman/listinfo/users<https://lists.biomart.org/mailman/listinfo/users> > -- Arek Kasprzyk, MD, MSc, PhD BioMart Project Lead www.biomart.org
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