Sorry, forgot to CC the list.

---------- Forwarded message ----------
From: *Peter Cock*
Date: Tuesday, September 25, 2012
Subject: [galaxy-dev] problem installing blast_datatypes manually
To: Liisa Koski <>

On Tuesday, September 25, 2012, Liisa Koski wrote:

> Hello,
> I followed the instructions below to manually install the blast_datatypes:
> Manual Installation
> ===================
> Normally you would install this via the Galaxy ToolShed, which would move
> the provided file into a suitable location and process the
> datatypes_conf.xml entry to be combined with your local configuration.
> However, if you really want to this should work for a manual install. Add
> the following line to the datatypes_conf.xml file in the Galaxy main
> folder:
>    <datatype extension="blastxml" type="galaxy.datatypes.blast:BlastXml"
> mimetype="application/xml" display_in_upload="true"/>
> Also create the file lib/galaxy/datatypes/ by moving, copying or
> linking
> the file provided in this tar-ball.  Finally add 'import blast'
> near
> the start of file lib/galaxy/datatypes/ (after the other import
> lines).
> =========================
> I restarted my local Galaxy instance but still get this error.
> *WARNING:galaxy.datatypes.registry:Error appending sniffer for datatype
> 'galaxy.datatypes.xml:BlastXml' to sniff_order: 'module' object has no
> attribute 'BlastXml'*
> Any help would be much appreciated.
> Thanks,
> Liisa

The error message sounds like your XML file is using the old location of
the BlastXml class (it used to be in an file, now it is in
instead). Can you grep the XML file for Blast? (Use -I for case insensitive)

Sadly right now our Galaxy server is offline (suspected disk failure), so I
may not be able to double check what is on our machine. I'll try to have a
look at work tomorrow though.

(Out of interest, was there a reason you didn't use the automatic install
from the ToolShed?)


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