tiff format problem

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carol white ▴ 680

@carol-white-2174

Last seen 8.9 years ago

European Union

Hi, I want to save the image produced by heatmap.2 in a tiff file. To do so, I call tiff(filename ='test.tiff', res = 300) heatmap.2(c2, col = greenred(200),labCol = "", labRow = "",breaks = seq(-3,3,0.03), trace = "none", dendrogram = "none", keysize = 2, scale = "none") But I get the following error message after the call of heatmap.2 Error in plot.new() : unimplemented cairo-based device Error in par(op) : invalid value specified for graphical parameter "pin" I use R version 2.9.1, system x86_64, linux-gnu Look forward to your reply, Carol [[alternative HTML version deleted]]

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ADD COMMENT • link updated 14.7 years ago by Sean Davis 21k • written 14.7 years ago by carol white ▴ 680

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Sean Davis 21k

@sean-davis-490

Last seen 4 months ago

United States

On Fri, Sep 4, 2009 at 3:28 AM, carol white <wht_crl@yahoo.com> wrote: > Hi, > I want to save the image produced by heatmap.2 in a tiff file. To do so, I > call > tiff(filename ='test.tiff', res = 300) > heatmap.2(c2, > col = greenred(200),labCol = "", labRow = "",breaks = seq(-3,3,0.03), > trace = "none", dendrogram = "none", keysize = 2, scale = "none") > > But I get the following error message after the call of heatmap.2 > > Error in plot.new() : unimplemented cairo-based device > Error in par(op) : invalid value specified for graphical parameter "pin" > > I use R version 2.9.1, system x86_64, linux-gnu > > Hi, Carol. What is the output of capabilities()? Does tiff say "TRUE"? If not, then your system does not support making tiffs. Sean [[alternative HTML version deleted]]

ADD COMMENT • link 14.7 years ago Sean Davis 21k

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In effect, tiff says false. How would the system have supported? what is missing? thanks --- On Fri, 9/4/09, Sean Davis <seandavi@gmail.com> wrote: From: Sean Davis <seandavi@gmail.com> Subject: Re: [BioC] tiff format problem To: "carol white" <wht_crl@yahoo.com> Cc: bioconductor@stat.math.ethz.ch Date: Friday, September 4, 2009, 4:27 AM On Fri, Sep 4, 2009 at 3:28 AM, carol white <wht_crl@yahoo.com> wrote: Hi, I want to save the image produced by heatmap.2 in a tiff file. To do so, I call tiff(filename ='test.tiff', res = 300) heatmap.2(c2, col = greenred(200),labCol = "", labRow = "",breaks = seq(-3,3,0.03), trace = "none", dendrogram = "none", keysize = 2, scale = "none") But I get the following error message after the call of heatmap.2 Error in plot.new() : unimplemented cairo-based device Error in par(op) : invalid value specified for graphical parameter "pin" I use R version 2.9.1, system x86_64, linux-gnu Hi, Carol. What is the output of capabilities()? Does tiff say "TRUE"? If not, then your system does not support making tiffs. Sean [[alternative HTML version deleted]]

ADD REPLY • link 14.7 years ago carol white ▴ 680

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As another option, except postscript ('file_name.eps'), is there any other function that creates eps format to be used when running R in background? Carol --- On Fri, 9/4/09, Sean Davis <seandavi@gmail.com> wrote: From: Sean Davis <seandavi@gmail.com> Subject: Re: [BioC] tiff format problem To: "carol white" <wht_crl@yahoo.com> Cc: bioconductor@stat.math.ethz.ch Date: Friday, September 4, 2009, 4:27 AM On Fri, Sep 4, 2009 at 3:28 AM, carol white <wht_crl@yahoo.com> wrote: Hi, I want to save the image produced by heatmap.2 in a tiff file. To do so, I call �tiff(filename ='test.tiff', res = 300) heatmap.2(c2, col = greenred(200),labCol = "", labRow = "",breaks = seq(-3,3,0.03), trace = "none", dendrogram = "none", keysize = 2, scale = "none") But I get the following error message after the call of heatmap.2 Error in plot.new() : unimplemented cairo-based device Error in par(op) : invalid value specified for graphical parameter "pin" I use R version 2.9.1, system x86_64, linux-gnu Hi, Carol. What is the output of capabilities()?�� Does tiff say "TRUE"?� If not, then your system does not support making tiffs. Sean [[alternative HTML version deleted]]

ADD REPLY • link 14.7 years ago carol white ▴ 680

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amit mandal ▴ 140

@amit-mandal-3151

Last seen 9.7 years ago

hello carol, I use the "savePlot" command to save images produced in R. Till the pop-up graphical window containing the image is open, this command can be used. To save in 'tiff' format one may go like this - savePlot(filename=paste("*name_by_which_to_save* ",type="tiff",sep='.'),type="tiff") I haven't used the heatmap.2 command, but the error messages seem to tell something wrong with the heatmap command and not with the tiff(...) command. cheers, amit mandal Graduate student Genomics & Molecular Medicine Lab IGIB, Delhi On Fri, Sep 4, 2009 at 12:58 PM, carol white <wht_crl@yahoo.com> wrote: > Hi, > I want to save the image produced by heatmap.2 in a tiff file. To do so, I > call > tiff(filename ='test.tiff', res = 300) > heatmap.2(c2, > col = greenred(200),labCol = "", labRow = "",breaks = seq(-3,3,0.03), > trace = "none", dendrogram = "none", keysize = 2, scale = "none") > > But I get the following error message after the call of heatmap.2 > > Error in plot.new() : unimplemented cairo-based device > Error in par(op) : invalid value specified for graphical parameter "pin" > > I use R version 2.9.1, system x86_64, linux-gnu > > Look forward to your reply, > > Carol > > > > [[alternative HTML version deleted]] > > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > -- --------------------------------------------------------------- The robbed that smiles, steals something from the thief. - Shakespeare --------------------------------------------------------------- [[alternative HTML version deleted]]

ADD COMMENT • link 14.7 years ago amit mandal ▴ 140

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