[Gate-users] GATE Docker container now available

[Maxime Chauvin]

Dear Michael,

I came across this problem, I am also running GATE in docker containers via HTCondor.
I didn’t know about the --login argument.

Try this in your this-job.sh (change the paths with yours):
#!/bin/sh
# set up environment variables
source /geant4/geant4.10.02.p02-install/bin/geant4.sh
export PATH=\$PATH:/gate/gate_v7.2-install/bin
# start
cd `dirname $0`
Gate this_macro.mac > run.log

Cheers,
  Maxime Chauvin

> On 9 Oct 2018, at 22:22, Miller, Michael <Michael.a.Miller at philips.com> wrote:
> 
> Dear gate-users,
>  
> I’ve been running Gate in the docker container and now want to use HT condor to schedule jobs.  When I run the gate container in scripts or manually, I mount a local drive for the gate output:
>  
>                 docker run -it --mount type=bind,source=/scratch-for-this-job,target=/scratch \
> opengatecollaboration/gate /scratch/this-job.sh
>  
> I start gate with the script /scratch-for-this-job/this-job.sh:
>                 #!/usr/bin/bash --login
>                 cd `dirname $0`
> Gate this_macro.mac
>  
> The “--login" is needed to ensure that the shell in the container finds Gate.  I’ve tried moving this to HT condor with this submit file:
> universe       = docker
> docker_image   = opengatecollaboration/gate
> executable     = /scratch-for-this-job‑/this-job.sh
> output         = docker-gate.out.$(ClusterID)-$(ProcID)
> error          = docker-gate.err.$(ClusterID)-$(ProcID)
> log            = docker-gate.log.$(ClusterID)-$(ProcID)
> queue
>  
> This fails with a  “Gate: command not found” error.  I think this is because the script is not starting as a login shell, even with the “--login" option. 
>  
> Can anyone provide an example of how they’ve used the docker universe with the  opengatecollaboration/gate?  Or have people been using the vanilla universe and managing directories separately from condor?
>  
> Thanks, Mike
> 
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