Rdata is binary and serialises R objects so I sure hope you don't have to
peek inside - probably needs most of an R environment - like rpy or
something.
A binary header signature magic number would be ideal - I checked a few
saved rdata files lying around here and all seemed to start with the
following bytes - all were variable after the 12th:
1f 8b 08 00 00 00 00 00  00 03 d4 fd
Maybe someone else can confirm that as a reliable binary hex header
signature for rdata?
I couldn't find anything in the R docs - probably take a good deep dive
into the guts of the save/load function source to be sure.

On Thu, Oct 30, 2014 at 8:54 PM, Lukasse, Pieter <pieter.luka...@wur.nl>
wrote:

> Hi John,
>
> Yes, I think this should work as I have seen it work for another binary
> type I made before. See below:
>
> class FileSet( Binary ):
>     """FileSet containing N files"""
>     file_ext = "prims.fileset.zip"
>     blurb = "(zipped) FileSet containing multiple files"
>     def sniff( self, filename ):
>         # If the zip file contains multiple files then return true, false
> otherwise:
>         zf = zipfile.ZipFile(filename)
>         if (len(zf.infolist())>1):
>             return True
>         else :
>             return False
>
> # the if is just for backwards compatibility...could remove this at some
> point
> if hasattr(Binary, 'register_sniffable_binary_format'):
>     Binary.register_sniffable_binary_format('FileSet',
> 'prims.fileset.zip', FileSet)
>
>
> Now the question I have is: what would be a good logic to use in the sniff
> method? I need something that uniquely distinguishes this zipped file from
> other zip files, right? In the previous example above I found a solution by
> checking whether the zip file has multiple files inside and return true if
> this is the case. Now with RData, does it mean I have to try to parse the
> binary contents inside and come with a good heuristic/rule ? Just wondering
> if someone already has thought about such a rule, specifically for RData.
>
> Thanks,
>
> Pieter.
>
>
> -----Original Message-----
> From: John Chilton [mailto:jmchil...@gmail.com]
> Sent: donderdag 23 oktober 2014 3:02
> To: Lukasse, Pieter
> Cc: galaxy-dev@lists.bx.psu.edu
> Subject: Re: [galaxy-dev] strange issue with .RData files
>
> Hey Pieter,
>
>   Sorry I am swamped right now so I don't have time to dig into this in
> detail - but I have encountered this before with datatypes that are
> compressed - zipped, gzipped, etc.... Galaxy will attempt to decompress
> them in order to figure out what they are. I believe this is what is
> happening to your data. If you register the type as a sniffable binary it
> looks like it should skip the decompression though
> - unless I am reading this logic wrong in tools/data_source/upload.py
> https://gist.github.com/jmchilton/54b5d7485fcd16eec984.
>
> E.g. like bam datatypes:
>
> class Bam( Binary ):
>    ....
>
> Binary.register_sniffable_binary_format("bam", "bam", Bam)
>
> Have you registered a sniffable binary datatype for RData?
>
> -John
>
>
>
> On Wed, Oct 22, 2014 at 9:38 AM, Lukasse, Pieter <pieter.luka...@wur.nl>
> wrote:
> > Hi,
> >
> >
> >
> > When I upload any .RData file to my Galaxy server it seems to be
> > unpacking/changing it. The resulting file in my history is different
> > and around 2x larger than the uploaded file. The tool that needs to
> > use it also aborts with an error due to this erroneous file.
> >
> >
> >
> > What are the workarounds?
> >
> >
> >
> > Thanks,
> >
> >
> >
> > Pieter Lukasse
> >
> > Wageningen UR, Plant Research International
> >
> > Department of Bioinformatics (Bioscience)
> >
> > Wageningen Campus, Building 107, Droevendaalsesteeg 1, 6708 PB,
> > Wageningen, the Netherlands
> >
> > T: +31-317481122;
> > M: +31-628189540;
> > skype: pieter.lukasse.wur
> >
> > http://www.pri.wur.nl
> >
> >
> >
> >
> > ___________________________________________________________
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