The format is incorrect for the interval file - the "chromosome"
field (c1, or the first field) should be the same as the
"identifier" (the ">" line) in the fasta file. In your case, this
Change what you have assigned as "Chr1" to be "AF148805" to make the
On 12/19/12 4:19 PM, shamsher jagat
I have also shared history with you File 27 and 32 are
fetching empty seq file. I think since bacterial genome is not
having any Chr that may be the problem, I tried all option just
coordinates; Chr1 however the out put is empty.
On Wed, Dec 19, 2012 at 10:07 AM,
Jennifer Jackson <firstname.lastname@example.org> wrote:
To be specific, on the "Extract" tool form, you will use
the option: "Source for Genomic Data:" as "History", then
for the new menu option "Using reference file:", select
the fasta dataset of your genome from your active history.
If you have trouble, be sure to double check that your
formats match those required by the tool (listed on tool's
form). Detailed custom genome troubleshooting help is in
the wiki above and file format troubleshooting help is
here, including links to data specifications: http://wiki.galaxyproject.org/Support#Troubleshooting_tool_errors
(start here, more help in following sections, same wiki)
On 12/19/12 8:19 AM, shamsher jagat wrote:
I have a bacterial genome from ncbi and
woulld like to extract seq from the corresponding
fasta file of bacterial genome. Since i have list of
coordinates so would not be possible to extract one by
one. Is there any interface within galxy that i can
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