Hi Steve,

Galaxy try to sniff the data to guess the appropriate datatype.
For Binaries, if any datatype (sniffer) is found from https://github.com/galaxyproject/galaxy/blob/dev/lib/galaxy/datatypes/binary.py , you get this message "The binary uploaded file contains inappropriate content."

For your wave file, you will have to add a class (https://github.com/galaxyproject/galaxy/blob/dev/lib/galaxy/datatypes/binary.py#L1334)  for the wave format and implement a sniffer (https://github.com/galaxyproject/galaxy/blob/dev/lib/galaxy/datatypes/binary.py#L1354) with a test if/else https://github.com/galaxyproject/galaxy/blob/dev/lib/galaxy/datatypes/binary.py#L1358 
Typically for Binary, you can get the first n bytes which used to be a text  and check it’s equal to, i hope, "wave". There are bunch of example in the file.

And finally, a Pull Request on https://github.com/galaxyproject/galaxy :)

Good luck

Gildas

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Gildas Le Corguillé - Bioinformatician/Bioanalyste

Plateform ABiMS (Analyses and Bioinformatics for Marine Science)
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Member of the Workflow4Metabolomics project
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Le 22 oct. 2016 à 12:36, Peter Cock <p.j.a.cock@googlemail.com> a écrit :

Hi Steve,

You are on the right track, but something in the WAV file has
triggered one of Galaxy's security protections to try to block
uploading of potentially dangerous files. There may be some
settings here you can relax - I've not had to deal with this
myself.

Peter

On Fri, Oct 21, 2016 at 8:55 PM, Steve Cassidy <steve.cassidy@mq.edu.au> wrote:
Thanks all,
 it seems that my real problem is that the audio file (.wav) is not being
identified as a valid datatype and ending up as a zero length text file. So,
I need to start to explore the world of datatypes.

Following the docs
(https://wiki.galaxyproject.org/Admin/Datatypes/Adding%20Datatypes) I can
modify datatypes_conf.xml in my Galaxy sources and add a new datatype for
wav files:

   <datatype extension="wav" type="galaxy.datatypes.binary:Binary"
display_in_upload="true" mimetype="audio/wav" subclass="True”/>

but, I get a message "The uploaded binary file contains inappropriate
content” and a zero length file just as I did before adding this - although
the datatype is now set to ‘wav’.

I didn’t add a sniffer for this and set the datatype explicitly on upload.

Also, this doesn’t seem like a modular way to add datatypes - how do I
include datatypes in my tool definition?  I can see from some other tools
that I include a datatypes_conf.xml in my tool folder.   When I try that and
test with planemo the new type isn’t found.

Pointers welcome.

Thanks,

Steve
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