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From Jeffery Kinnison <Jeffery.D.Kinniso...@nd.edu>
Subject Re: Planning for In-Situ Application and Resource Monitoring [GSoC Project]
Date Wed, 04 May 2016 23:10:24 GMT
I figured that would be the case, I just wanted to put them out there as
preliminary thoughts on additions that might need to be made.

On Wed, May 4, 2016 at 6:47 PM, Pierce, Marlon <marpierc@iu.edu> wrote:

> +1 for publishing to RabbitMQ. Don’t worry about XBaya as it is obsolete;
> upgrading it is another GFAC project. I suggest you focus on the SimStream
> to RabbitMQ parts first. The API changes will need additional discussion,
> probably over a hangout.
>
> Marlon
>
>
> From: Jeffery Kinnison <Jeffery.D.Kinnison.1@nd.edu>
> Reply-To: "dev@airavata.apache.org" <dev@airavata.apache.org>
> Date: Wednesday, May 4, 2016 at 6:41 PM
>
> To: "dev@airavata.apache.org" <dev@airavata.apache.org>
> Subject: Re: Planning for In-Situ Application and Resource Monitoring
> [GSoC Project]
>
> The more I look into it, the more I like using RabbitMQ within the
> SimStream program to communicate with Airavata server. This is what I have
> so far for practical steps to take in implementing the project:
>
> SimStream:
>
>    - Refactor to use RabbitMQ queues instead of Tornado Web Server.
>    - Define a config file to send with each job that contains information
>    about how to contact Airavata server, which scripts to run to collect the
>    simulation and resource data, any arguments to pass to the scripts. This
>    will decouple data collection logic from SimStream and hopefully eliminate
>    the need for long-running data collection scripts (i.e., one data point is
>    collected per run of the collection script).
>
>
> Within the Airavata API Server:
>
>    - Extend the existing org.apache.airavata.model.job.JobModel to
>    include information about contacting SimStream (queue name, valid data
>    stream names,
>    - Add classes RabbitMQJobDataPublisher and RabbitMQJobDataConsumer
>    (analogous to org.apache.airavata.messaging.core.impl.RabbitMQProcessLaunchPublisher
>    and org.apache.airavata.messaging.core.impl.
>    RabbitMQProcessLaunchConsumer)
>    - Extend the API Server to listen for requests for job data (requires
>    identification of which job, which data from the job, in addition to
>    verification that the requester should be allowed to perform this operation)
>    - Extend the API Server to send requested job data back to the gateway
>    and user that issued the request.
>
> Within Airavata's XBaya :
>
>    - Create default services for the data collection and event
>    monitoring/handling aspects of the project that can be added into the
>    workflow composer.
>    - Create a service that accepts custom data collection scripts to send
>    along with the job.
>
> Within the PGA:
>
>    - Add blades and controllers that allow users to view requested data
>    from a job.
>    - Extend the experiment-related app functionality to allow users to
>    retrieve data from a running job through the gateway.
>
> I saw that there are some existing but empty or commented-out classes (
> org.apache.airavata.model.util.ComputeResourceUtil,
> org.apache.airavata.monitoring.Main) that suggest there was work toward
> similar functionality as I am suggesting. Searching JIRA for these didn't
> turn up any information, and I'm curious about why these plans were
> abandoned, or if they were even related to my project.
>
> I'd appreciate any comments on the above!
>
> Best,
>
> Jeff K.
>
> On Wed, Apr 27, 2016 at 4:43 PM, Pierce, Marlon <marpierc@iu.edu> wrote:
>
>> RabbitMQ has first class support for Python, so that should not be a
>> problem.  Suresh already included the link.  Suresh covered most of the
>> bases already, so I’ll just reiterate that Airavata’s use of AMQP/RabbitMQ
>> and Thrift should make it programming language independent. You can see how
>> well this holds up in reality.
>>
>> Marlon
>>
>> From: Jeffery Kinnison <Jeffery.D.Kinnison.1@nd.edu>
>> Reply-To: "dev@airavata.apache.org" <dev@airavata.apache.org>
>> Date: Wednesday, April 27, 2016 at 4:35 PM
>> To: "dev@airavata.apache.org" <dev@airavata.apache.org>
>> Subject: Re: Planning for In-Situ Application and Resource Monitoring
>> [GSoC Project]
>>
>> Thanks Suresh,
>>
>> I was hoping that I could stick with Python for the meat of the project,
>> not just because it's the language I'm most comfortable with, but also
>> thanks to the fact that it's fairly ubiquitous on HPC systems.
>>
>> I'll take a look at either interfacing the POC with RabbitMQ or
>> converting it entirely to their Python bindings. If anyone has any
>> alternative suggestions, they would be much appeciated.
>>
>> Jeff K.
>>
>> On Wed, Apr 27, 2016 at 4:20 PM, Suresh Marru <smarru@apache.org> wrote:
>>
>>> Hi Jeff,
>>>
>>> On Apr 27, 2016, at 4:08 PM, Jeffery Kinnison <
>>> Jeffery.D.Kinnison.1@nd.edu> wrote:
>>>
>>> Hi Dev Team,
>>>
>>> I'd like to develop a plan for implementing my GSoC project in
>>> conjunction to getting my development environment up and running. This is
>>> my first substantial experience with Open Source software development on
>>> this scale, so thank you in advance for bearing with me.
>>>
>>>
>>> You did great during proposal (hence you have a project), just continue
>>> the same. At worse you will hear a lot of RTFM which is a common encounter
>>> in open source. I will let you google for it.
>>>
>>> The full project proposal can be found at
>>> https://cwiki.apache.org/confluence/display/AIRAVATA/GSoC+Proposal+-+In+Situ+Simulation+Analysis+Using+Airavata
>>>
>>> The idea is to allow Airavata users to look behind the curtain at jobs
>>> they are running and enable automatic response to conditions encountered as
>>> jobs run, both at the system and application level. This will likely
>>> require a lightweight server to run alongside each job, which will
>>> communicate with the Airavata server.
>>>
>>> I have a prototype for the lightweight server (
>>> https://github.com/jeffkinnison/simstream) written in Python, however I
>>> know that Apache software is typically Java-based. The question here is one
>>> of whether or not the prototype can be rolled into Airavata, or if I need
>>> to begin looking into Java-based solutions.
>>>
>>>
>>> No, you do not need to port your simstream to Java, infact. Since your
>>> application demeon will need to run on HPC compute nodes, Java will not be
>>> a good fit there. I think you should stick to python. For the communication
>>> with Airavata, one suggestion will be to send a AMQP message which Airavata
>>> listens to. You can follow this tutorial as a start -
>>> https://www.rabbitmq.com/tutorials/tutorial-one-python.html. Others may
>>> have different suggestions.
>>>
>>> The other initial question I have is one of how the Airavata server
>>> submits jobs. From what I can tell, Airavata sends batch scripts to
>>> connected computing resources, and my thinking right now about how to
>>> deploy the lightweight server is to add its startup logic to the submit
>>> scripts. Is this the correct thinking?
>>>
>>>
>>> Yes thats exactly right. As you might see from other discussions, the
>>> cloud based submissions might not have a batch script, but its fair to
>>> assume your server will be launched one way or another.
>>>
>>>
>>> Again, thank you for answering these questions, and I'm looking forward
>>> to working with everyone this summer.
>>>
>>>
>>> Keep them coming.
>>>
>>> Suresh
>>>
>>>
>>> Best,
>>> Jeff K.
>>>
>>>
>>>
>>
>

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