Ok, here's what I tried:
$ sudo -u sgeadmin qconf -as ip-10-29-213-80.ec2.internal
sudo: qconf: command not found
So then I tried:
$ which qconf
$ sudo -u sgeadmin /opt/sge/bin/lx24-amd64/qconf -as
critical error: Please set the environment variable SGE_ROOT.
So then I tried:
$ echo $SGE_ROOT
$ sudo -u sgeadmin export SGE_ROOT=/opt/sge
sudo: export: command not found
Any ideas? I don't have the greatest understanding of the export command.
On Fri, Sep 14, 2012 at 8:23 AM, greg <margeem...@gmail.com> wrote:
> Thanks James. I'll give that a try. That would be excellent if you
> could make work nodes submit hosts by default in a future release.
> How would I get that on the plans? Submit a ticket somewhere?
> I guess in the meantime I could write a python script that runs qconf
> -sconfl to list all the hosts and for any that aren't listed when
> running qconf -ss, it would run qconf -as hostname on them.
> On Thu, Sep 13, 2012 at 5:00 PM, James Taylor <ja...@jamestaylor.org> wrote:
>> You probably need to sudo to sgeadmin (cloudman guys correct me if you
>> have this setup differently).
>> I don't see any reason not to make worker nodes submit hosts by
>> default in a future cloudman release.
>> -- jt
>> On Thu, Sep 13, 2012 at 4:17 PM, greg <margeem...@gmail.com> wrote:
>>> As a follow up I found a command that should add the new nodes as
>>> submit hosts and I tried to run it but I got this error:
>>> $ qconf -as ip-10-28-164-178.ec2.internal
>>> denied: "ubuntu" must be manager for this operation
>>> What does it mean by manager? How would I run this command?
>>> I guess my preference is for Cloudman to do this automatically though
>>> so I'll be distributing this program to 3rd party users using the
>>> built-in cloudman sharing. I can't rightly ask users to be running
>>> Thanks again,
>>> On Thu, Sep 13, 2012 at 3:59 PM, greg <margeem...@gmail.com> wrote:
>>>> Hi guys,
>>>> I created a new Galaxy instance web launcher
>>>> (https://biocloudcentral.herokuapp.com/launch) and then I ssh'd into
>>>> the master node.
>>>> I'm trying to run a Perl script that makes several qsub calls to other
>>>> perl scripts. Now the catch is that one of those perl scripts makes
>>>> its own qsub calls.
>>>> And I'm getting this error when it tries to do that:
>>>> Unable to run job: denied: host "ip-10-29-176-111.ec2.internal" is no
>>>> submit host.
>>>> Somehow this works fine on other clusters I've run this code on. Any
>>>> idea what could be going on? Do I need to make all of the nodes
>>>> "submit hosts"?
>>>> Thanks a bunch!
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The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org. Please keep all replies on the list by
using "reply all" in your mail client. For discussion of
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use the Galaxy Development list:
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