RamiGO package function getAmigoTree broken

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Asta Laiho ▴ 120

@asta-laiho-4271

Last seen 8.8 years ago

Finland

Hi, I have routinely used the RamiGO package (that I really like!) for plotting go graphs but now something seems to have gone broken for the getAmigoTree function: goIDs <- c("GO:0051130","GO:0019912","GO:0005783") color <- c("lightblue","red","yellow") pp <- getAmigoTree(goIDs=goIDs,color=color, + filename="example") Error during wrapup: unable to open <html><head> <title>301 Moved Permanently</title> </head><body>

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</body></html> sessionInfo() R version 3.0.2 (2013-09-25) Platform: x86_64-apple-darwin10.8.0 (64-bit) locale: [1] C/UTF-8/C/C/C/C attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] RamiGO_1.8.0 gsubfn_0.6-5 proto_0.3-10 loaded via a namespace (and not attached): [1] BiocGenerics_0.8.0 RCurl_1.95-4.1 RCytoscape_1.12.0 XML_3.95-0.2 [5] XMLRPC_0.3-0 graph_1.40.1 igraph_0.7.0 parallel_3.0.2 [9] png_0.1-7 stats4_3.0.2 tcltk_3.0.2 tools_3.0.2 I hope its possible to fix the package! Best wishes, Asta Laiho [[alternative HTML version deleted]]

GO RamiGO GO RamiGO • 1.2k views

ADD COMMENT • link updated 10.7 years ago by Dan Tenenbaum ★ 8.2k • written 10.7 years ago by Asta Laiho ▴ 120

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Dan Tenenbaum ★ 8.2k

@dan-tenenbaum-4256

Last seen 5 months ago

United States

Hello Asta, ----- Original Message ----- > From: "Asta Laiho" <asta.laiho at="" btk.fi=""> > To: bioconductor at r-project.org > Sent: Wednesday, April 2, 2014 1:37:14 AM > Subject: [BioC] RamiGO package function getAmigoTree broken > > Hi, > > I have routinely used the RamiGO package (that I really like!) for > plotting go graphs but now something seems to have gone broken for > the getAmigoTree function: > The release versionof Ramigo has been fixed. Version 1.8.1 will be available late tomorrow (Saturday) morning (Seattle time). You can install it with: source("http://bioconductor.org/biocLite.R") biocLite("RamiGO") Dan > goIDs <- c("GO:0051130","GO:0019912","GO:0005783") > color <- c("lightblue","red","yellow") > pp <- getAmigoTree(goIDs=goIDs,color=color, > + filename="example") > Error during wrapup: unable to open "-//IETF//DTD HTML 2.0//EN"> > <html><head> > 301 Moved Permanently > </head><body> >

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> </body></html> > > sessionInfo() > R version 3.0.2 (2013-09-25) > Platform: x86_64-apple-darwin10.8.0 (64-bit) > > locale: > [1] C/UTF-8/C/C/C/C > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > other attached packages: > [1] RamiGO_1.8.0 gsubfn_0.6-5 proto_0.3-10 > > loaded via a namespace (and not attached): > [1] BiocGenerics_0.8.0 RCurl_1.95-4.1 RCytoscape_1.12.0 > XML_3.95-0.2 > [5] XMLRPC_0.3-0 graph_1.40.1 igraph_0.7.0 > parallel_3.0.2 > [9] png_0.1-7 stats4_3.0.2 tcltk_3.0.2 > tools_3.0.2 > > I hope it?s possible to fix the package! > > Best wishes, > Asta Laiho > [[alternative HTML version deleted]] > > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor

ADD COMMENT • link 10.7 years ago Dan Tenenbaum ★ 8.2k

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