Hi Everyone,
I'm trying to set up Cloud man.
I believe I followed the instructions listed here to a T:
http://wiki.g2.bx.psu.edu/Admin/Cloud
After launching the instance I even waited 20 minutes before trying to
access the public DNS
ec2-xxx-xx-xx-xx.compute-1.amazonaws.com/cloud, but my
the step for creating a security
group on the wiki and opened all the specified ports?
Enis
On Fri, Dec 16, 2011 at 7:58 PM, mailing list margeem...@gmail.com wrote:
Hi Everyone,
I'm trying to set up Cloud man.
I believe I followed the instructions listed here to a T:
http://wiki.g2
Ok I got past that part. I hadn't applied my rules :-(.
Now when I go to the public DNS it prompts me for a username and
password but it's not accepting the password I entered in the user
data. Any idea what went wrong?
Thanks again,
Greg
On Mon, Dec 19, 2011 at 2:24 PM, mailing list margeem
Hi guys,
I tried to use http://biocloudcentral.org/
But it said Amazon connection problem: A problem starting EC2
instance. Check AWS console. It did create a new keypair and
security group though.
Where does it want to look for additional information? Also Should I
maybe not being using
Thanks Brad! I'll give it another try. I'll be sure to let you guys
know any feedback I have.
-Greg
On Tue, Dec 27, 2011 at 8:59 PM, Brad Chapman chapm...@50mail.com wrote:
Greg;
I tried to use http://biocloudcentral.org/
But it said Amazon connection problem: A problem starting EC2
I was wondering how the sharestring feature works?
Enis mention it a little bit here:
http://biostar.stackexchange.com/questions/15467/galaxy-cloudman-best-way-to-customize-and-share-cloudman/15481#15481
So as I understand it, I do my customizations and persist them, and
then I get a sharestring
Hi guys,
Is the launch page down today?
https://biocloudcentral.herokuapp.com/launch
It seems to just hang for me and not load.
Let me know if there's anything I can do
Thanks
Greg
___
The Galaxy User list should be used for the
.
How much space is absolutely dependent on your needs. Keep in mind that you
can increase size later if necessary via the admin UI. The maximum volume
size (per an amazon limit to EBS volume size) is currently 1TB.
-Dannon
On Jan 10, 2012, at 2:42 PM, mailing list wrote:
Hi guys,
When I
in case they're sensitive)
On Tue, Jan 10, 2012 at 2:15 PM, mailing list margeem...@gmail.com wrote:
Hi guys,
Is the launch page down today?
https://biocloudcentral.herokuapp.com/launch
It seems to just hang for me and not load.
Let me know if there's anything I can do
Thanks
Greg
select the deletion option at cluster termination to remove the
bucket and volumes permanently.
-Dannon
On Jan 10, 2012, at 3:18 PM, mailing list wrote:
Yes, I did use the same name. I thought once I terminated everything
would be gone.
So how do I make a clean start?
Thanks,
Greg
Actually nevermind on that. I think I just wasn't waiting long enough.
On Tue, Jan 10, 2012 at 3:37 PM, mailing list margeem...@gmail.com wrote:
Ok thanks. That makes sense.
Maybe a separate issue but when I do the terminate option from within
the CloudMan web interface it says it's
I'm following the instructions here:
http://wiki.g2.bx.psu.edu/Admin/Cloud/Customize%20Galaxy%20Cloud
I ssh'd in and just made this change:
cd /mnt/galaxyData
sudo git clone git://github.com/JaneliaSciComp/msg.git
Now I want to persist it, but as my subject line says, I don't seem to
have the
on your part.
-Dannon
On Jan 10, 2012, at 4:02 PM, mailing list wrote:
I'm following the instructions here:
http://wiki.g2.bx.psu.edu/Admin/Cloud/Customize%20Galaxy%20Cloud
I ssh'd in and just made this change:
cd /mnt/galaxyData
sudo git clone git://github.com/JaneliaSciComp/msg.git
Now I
manually resize a volume if you did need more
room. /mnt/galaxyData is the volume referred to in the dialogs you're seeing.
-Dannon
On Jan 10, 2012, at 2:53 PM, mailing list wrote:
Thanks. So if I just want to run my own program that uses SGE, it
sounds like I shouldn't need a Galaxy
, at 12:56 PM, mailing list wrote:
Hi guys,
Another related question. So if I need a large data set for my
program to run on, should that also be stored in GalaxyData? What is
the best way to get the data on there?
I saw something about FTP but it seemed kind of confusing. Also I
chose
On Wed, Jan 11, 2012 at 8:11 AM, Dannon Baker dannonba...@me.com wrote:
For sharing a cluster (of any kind) just click the sharing icon () next
to the cluster name and the dialog that pops up will walk you through the
next steps.
-Dannon
On Jan 11, 2012, at 7:27 AM, mailing list wrote:
So how
Hi guys,
I've asked some questions about sharing an instance but it doesn't
seem to be working the way I'm expecting (Unfortunately I'm also new
to Amazon EC2/S3 so that may be part of my difficulty). I'm thinking
maybe if I can explain what I'm trying to do, you guys could tell me
the best way
Hi guys,
Sorry if you get this twice (I got an email back after sending it that
said it was in moderation because it was too big. So I cut out the
other text).
-- orig message:
Thanks guys. That makes sense now. It sounds like I was almost there.
Two follow up questions:
1. Can I terminate
Hi guys,
For the past two days when I try to launch my CloudMan instance using
http://biocloudcentral.herokuapp.com the first time I see an instance
get up and running, but it doesn't mount my galaxyData volume and I
can't get to the webpage public DNS/cloud. The webpage just says
Unable to
Hi guys,
So I'm trying to take a bioinformatics pipeline we currently run on
our own SGE cluster (which seems to have a lot of customizations ! I'm
finding out) and I want to run it on Amazon using CloudMan.
So I'm trying to figure out what the differences are. Here are my
questions so far:
We
over time because it is somewhat sensitive data...
Enis
On Tue, Jan 24, 2012 at 2:39 PM, mailing list margeem...@gmail.com wrote:
Hi guys,
For the past two days when I try to launch my CloudMan instance using
http://biocloudcentral.herokuapp.com the first time I see an instance
get up
Thanks. I'll be sure to keep you guys updated. So far everything is
working great!
-Greg
On Tue, Jan 24, 2012 at 9:20 AM, Enis Afgan eaf...@emory.edu wrote:
Hi again Greg,
On Tue, Jan 24, 2012 at 2:51 PM, mailing list margeem...@gmail.com wrote:
Hi guys,
So I'm trying to take
Hi Brad,
I'm almost positive I originally started the instance via
BioCloudCentral, and I always use Large. I've been exclusively using
BioCloudCentral for a few weeks now.
I hadn't noticed this issue until yesterday. I can definitely do
whatever you need if you want to dig into the issue
are available. PE refers to parallel
programming environment from my reading.
Thanks,
Greg
On Tue, Jan 24, 2012 at 9:32 AM, mailing list margeem...@gmail.com wrote:
Thanks. I'll be sure to keep you guys updated. So far everything is
working great!
-Greg
On Tue, Jan 24, 2012 at 9:20 AM
Hi Brad,
On Tue, Jan 24, 2012 at 9:22 PM, Brad Chapman chapm...@50mail.com wrote:
Greg;
I'm almost positive I originally started the instance via
BioCloudCentral, and I always use Large. I've been exclusively using
BioCloudCentral for a few weeks now.
I hadn't noticed this issue until
Hi guys,
When I launch using BioCloudCentral
(http://biocloudcentral.herokuapp.com) I noticed it doesn't show my
public DNS. Even if I wait for a few minutes.
For the Public IP (Cloudman Console) table cell, it just shows
blank, and for the SSH access area is just says ssh ubuntu@
It hasn't
at this
point.
-Greg
On Fri, Jan 27, 2012 at 7:51 AM, mailing list margeem...@gmail.com wrote:
Hi Brad,
I tried again just now.
I launched and left it alone for 5 minutes. It said not available
in the Instance State cell. And nothing else happened.
Then I ran this in Firebug and it did
a call to the GET URL too
quickly and getting back some kind of bad value that's throwing off
the javascript logic? Undefined? That's my best guess at this
point.
-Greg
On Fri, Jan 27, 2012 at 7:51 AM, mailing list margeem...@gmail.com wrote:
Hi Brad,
I tried again just now.
I
What do you guys think about having more instance type options on the
BioCloud Central launch page?
I am interested in using the Hi-Memory On-Demand Instances. Would
CloudMan/Galaxy have any problems running on those instances?
Thanks,
Greg
Hi guys,
I was unable to load this site today:
https://biocloudcentral.herokuapp.com/launch
Please tell me it's still available. I spent long time writing our
documentation to tell users how to use it :-(
thanks,
Greg
___
The Galaxy
unable to duplicate the problem. The page loads OK and link-outs
are valid. Please try again and let us know if you continue to have
problems,
Best,
Jen
Galaxy team
On 3/28/12 5:43 AM, mailing list wrote:
Hi guys,
I was unable to load this site today:
https
for the bucket 'cm-31bf91279e41769ff78af22c1a276ece' and
verify the /shared/2012-01-12--18-03 folder structure exists.
-Dannon
On Apr 2, 2012, at 12:40 PM, mailing list wrote:
Hi guys, I'm still stuck on this :-(.
Are there any log files I could look at to get more details? I'm
definitely
Thanks Brad. Your last point sounds suspiciously like something I would do ...
So whenever I share I can terminate my instance but I shouldn't remove
any data? Is that correct?
Thanks,
Greg
On Tue, Apr 3, 2012 at 9:18 AM, Brad Chapman chapm...@50mail.com wrote:
Greg;
How do I know which
Hi guys,
I created a new Galaxy instance (probably around early July) with the
web launcher (https://biocloudcentral.herokuapp.com/launch).
I've been coming back and re-using it since then. However for the
past week at least I haven't been able to launch new nodes. They show
up as red on the
Thanks for the reply, Brad.
I tried clicking update cloudman but it now says there was an error
updating cloudman.
Here are the contents of the Cluster status log but I'm not sure what
the error is:
18:06:43 - Retrieved file 'persistent_data.yaml' from bucket
'cm-xxx' to 'pd.yaml'.
Ok, yes, that seems to have fixed it.
Thanks for the help!
-Greg
On Wed, Jul 25, 2012 at 9:16 AM, Brad Chapman chapm...@50mail.com wrote:
Greg;
I have to appeal to Enis for a detailed explanation of the cases where
it can fail like that, but doing it manually seems like a great approach
Hi guys,
I want to install Galaxy on a local server and hook it into our SGE cluster.
This excellent document seems to provide a lot of the steps
http://wiki.g2.bx.psu.edu/Admin/Config/Performance/Cluster
however I have two questions I'm not sure about.
1. Right now users keep their data in
have
your reasons, but I'm really just wondering what sort of copyright protection
i would need as a bioinformatics software developer to prevent such abuse of
charity.
All the best,
- John
On 22 Aug 2012, at 21:20, mailing list margeem...@gmail.com wrote:
Hi guys,
I want to install
Anyway, back to my question. Does anyone know? Would I be better off
asking on the developer mailing list or perhaps Stack Overflow?
Thanks again,
Greg
On Thu, Aug 23, 2012 at 2:59 PM, Joachim Baran joachim.ba...@gmail.com wrote:
On 23 August 2012 14:39, John Jones mr.johnjo...@gmail.com
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