Hello all,
We are looking into this. Look for more information later today.
Thanks for pointing this out,
Dave C
On Fri, Apr 15, 2011 at 9:28 AM, David C. Schwartz, Ph.D. <
dcschwa...@facstaff.wisc.edu> wrote:
> Agreed—I'm also having the same issues!
>
> David Schwartz
>
>
> From: Yi Yin
>
Hello Galaxy Support,
I generated an alignment with a "fastq groomed" illumina dataset using the "Map
with BWA" tool in galaxy with the "C. elegans ce6" genome. Interestingly the
results (when I click on the history name) say that the database used was
"ce7". When I try to use the "SAM-to-BAM"
AgreedI'm also having the same issues!
David Schwartz
From: Yi Yin
Date: Fri, 15 Apr 2011 12:00:06 -0400
To: nic blouin
Cc:
Subject: Re: [galaxy-user] unsubscribe
I have the same trouble as Giovanni, too. The confirmation email for
unsubscription never arrived. It would be very nice if
I set up a galaxy instance on the cloud, but got the following error when
trying to convert a bed file of hg18 coordinates to fasta sequence with the
"Extract Genomic DNA" tool as a test of the functionality of this instance:
No sequences are available for 'hg18', request them by reporting this e
I have the same trouble as Giovanni, too. The confirmation email for
unsubscription never arrived. It would be very nice if someone could help
remove my email from the subscription list.
Thanks!
On Fri, Apr 15, 2011 at 11:53 AM, nic blouin wrote:
> I am having the same trouble as Giovanni.
> i
I am having the same trouble as Giovanni.
i have unsubrcribed from the individual list and "all" several times, but the
emails keep coming at a brisk pace.
Is there someone who can help out
...
"Hi, I have been trying to
Hi i have java client of my tools i need to integrate them in galaxy..so
i basically need to convert those java client into xml.but i m not
sure whether java clients can be integrated in galaxy or not...please
let me knw d sameThank you
please remove me from mailing list - thanks
On 14-04-2011, at 9:26 AM, Guru Ananda wrote:
> Thanks for pointing this out, Brad. Both geecee and infoseq are in fact
> available on Galaxy under EMBOSS section.
>
> Guru.
>
> On Thu, Apr 14, 2011 at 12:13 PM, Brad Chapman wrote:
> Peter and Guru;
Hi, I have been trying to unsubscribe from this list as it jams up my inbox. I
read that a confirmation will be send but that e-mail has never arrived. I
there a way anyone can remove my e-mail address?
Thanks.
___
The Galaxy User list s
I don't think you'll need to convert the file other than maybe renaming the
extension (mv .dat filename.bam>) because Galaxy just adds that
same extension to each file while the metadata that it keeps tell it which
format the file is in. Just try opening the file up using the tool you were
planning
Hi Enis,
With the exception of the BAM file (4.1Gb) I have been able to download
everything that I have tried using the "disk" from the history panel. I think
the 4.1Gb file is just too large because I keep getting a memory error. Since I
am still new to the whole AWS-EC2 set-up, I have not foo
Hi Mike,
You should be able to download the desired file(s) directly from Galaxy by
expanding the desired history item and then clicking the 'disk' (i.e.,
download) icon.
Alternatively, if you want to copy the file by hand directly from the file
system on the instance, the following is the command
Hello again,
So I am able to see all of the .dat files in /mnt/galaxyData. What commands can
I use to download a file to my HD? Also, what program should I use to open the
.dat file?
Thanks again,
Mike
--- On Wed, 4/13/11, Enis Afgan wrote:
From: Enis Afgan
Subject: Re: [galaxy-user] Help!!
Dear All
I have combined H3K4me3 pattern in a specific region (Info: UCSC Main on Human:
wgEncodeBroadHistoneGm12878CtcfStdPk (genome)) with RefSeq genes in that region
(CSC Main on Human: refGene (genome)) and get this pdf histogram. I was
wondering if someone help me on interpretation of it.
On Thu, Apr 14, 2011 at 6:25 PM, Jeremy Goecks wrote:
>> Now why does a tool search on the public Galaxy instance for GC
>> not suggest this tool?
>>
>> Name: geecee
>> Description: Calculates fractional GC content of nucleic acid sequences
>>
>> Does this mean the description isn't searched? It w
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