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.lukasse@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
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