Sorry that you are having problems. Instead, use this Galaxy tool and
the links directly between Galaxy and SRA to add the fastq data to your
1 - Get Data -> EBI SRA ENA SRA
2 - Enter "SRR192339" into the query box and click on search
3 - At the far right in the bottom table, under the "Fastq" tab, find a
column named Galaxy, and under it a link for this data "Fastq file#1".
Click on this, and the dataset should start loaded into the current
When you import data, be sure to note the other information about the
experiment on the SRA form, so that you will know how to prepare the
data for use in Galaxy. Note that you cannot load HTML data into Galaxy,
so the index itself cannot be transferred directly. However you could
copy and paste this into a plain text file (plain .txt, not .html), and
upload that, if you wanted to keep a tracking history with the data.
This particular data was generated by the Illumina Genome Analyzer IIx
technology, which creates data that is compatible with ".fastqsanger"
format in Galaxy. It is also single end. This simplifies the data prep -
simply assign the datatype as ".fastqsanger" and it is ready to use with
tools. Starting with "FastQC" is generally considered a good idea.
Good luck with your project,
ps: Please note the corrected mailing list address "galaxy-u...@bx.psu.edu".
On 10/19/12 11:31 PM, pranathi pappu wrote:
Dear Sir /Madam ,
I have been i have been trying to upload NGS Datasets from NCBI protein
database onto the "Galaxy" website so that i could go on with my
work but then i have been getting a result like this :
format: txt, database:
Info: The uploaded binary file contains inappropriate content
This has been the case with almost all the files that i have been
upload . Please help me with this and i would be greatful if you
could direct me to the right person who can help me sort this matter out .
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