Hello, I was trying to run a dataset through Picrust on the web-based Galaxy. I did the OTU table in Qiime as explained in http://picrust.github.com/picrust/tutorials/otu_picking.html#otu-picking-tut..., with the command line: pick_closed_reference_otus.py -i $path/file.fasta -r $path/rep-set/97_otus.fasta -o $path/OTU_Table.biom. I uploaded the file in Get Data, and I want to run the Normalize by Copy Number step, but I get the following message History does not include a dataset of the required format / build. I am not sure if when I generate the OTU Table I need to specify a particular format, or what the problem is. I would really appreciate some advice. I attach the biom file generated in case you need to take a look. Thank you very much in advance.
Hello Ines, You have reached the support mailing list for the public Main Galaxy instance at http://usegalaxy.org. While we can help with many usage questions, sometimes for specific tools it is best to contact the tool author and/or lab running the instance hosting the tool. This is one of those cases. I am guessing that you are using this tool from the Huttenhower Lab's public instance? http://huttenhower.sph.harvard.edu/galaxy/ Even though I suspect that you just need to assign the correct datatype in the UI, I honestly do not know enough about the tool implementation to confirm that as a solution, or help you with more details without going through the tool in more detail. The team there is certainly in a better position of experience to help. Their contact for questions and help with this tool is: https://groups.google.com/d/forum/picrust-users Maybe you have already found this contact, but if not, hopefully it leads to a solution! Best, Jen Galaxy team On 1/29/14 1:46 PM, Ines wrote:
Hello,
I was trying to run a dataset through Picrust on the web-based Galaxy. I did the OTU table in Qiime as explained in http://picrust.github.com/picrust/tutorials/otu_picking.html#otu-picking-tut..., with the command line: pick_closed_reference_otus.py -i $path/file.fasta -r $path/rep-set/97_otus.fasta -o $path/OTU_Table.biom.
I uploaded the file in Get Data, and I want to run the Normalize by Copy Number step, but I get the following message History does not include a dataset of the required format / build.
I am not sure if when I generate the OTU Table I need to specify a particular format, or what the problem is. I would really appreciate some advice.
I attach the biom file generated in case you need to take a look.
Thank you very much in advance.
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Jennifer Jackson