[BioC] pdf report in ShortRead

[Dan Tenenbaum]

Hi Kavita,

On Thu, Dec 29, 2011 at 3:01 PM, Kavita Garg [guest]
<guest at bioconductor.org> wrote:
>
> Is there a way to print the report in pdf format ? I tried the following and got an error.
>
> thanks
> kavita
>
>>class(qa)
> [1] "ShortReadQQA"
> attr(,"package")
> [1] "ShortRead"
>
>>rpt <- report(qa,dest = "REPORT.pdf", type = "pdf")
>
> Error: UserArgumentMismatch
>  'report, type="pdf"' not implemented for class 'ShortReadQQA'
>
>


Looking at the documentation (?report) suggests that generating PDF
reports is deprecated.
If you really need PDF, google can suggest some tools to convert HTML to PDF.

Dan



>  -- output of sessionInfo():
>
> R version 2.13.2 (2011-09-30)
> Platform: x86_64-unknown-linux-gnu (64-bit)
>
> locale:
>  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
>  [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
>  [5] LC_MONETARY=C              LC_MESSAGES=en_US.UTF-8
>  [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
>  [9] LC_ADDRESS=C               LC_TELEPHONE=C
> [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] ShortRead_1.10.4    Rsamtools_1.4.3     lattice_0.19-33
> [4] Biostrings_2.20.4   GenomicRanges_1.4.6 IRanges_1.10.4
>
> loaded via a namespace (and not attached):
> [1] Biobase_2.12.2  grid_2.13.2     hwriter_1.3     multicore_0.1-7
>
> --
> Sent via the guest posting facility at bioconductor.org.
>
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