From:Mason Meyer <mmeyer20@uncc.edu>
To: Arnaud Ceol <arnaud.ceol@iit.it>
CC: Norris, David <dcnorris@uncc.edu>; Ann Loraine <Ann.Loraine@uncc.edu>
Date: Thu, May 19, 2016 at 7:31 AM
Subject: Re: IGB slow with large quickloads, even if no annotation is selected

Hello Arnaud,

It is nice to hear from you again. Sorry to hear that you are experiencing this issue with IGB. I will look into it today and discuss it with the rest of the team if needed. I will let you know what I find.

It may be helpful if I could get the link to your Quickload Server to use for testing purposes, if possible.

Once again, thank you for bringing this issue to our attention. I will get back to you shortly.

Sincerely,

Mason Meyer
IGB Support Specialist

From:Mason Meyer <mmeyer20@uncc.edu>
To: Arnaud Ceol <arnaud.ceol@iit.it>
CC: Norris, David <dcnorris@uncc.edu>; Ann Loraine <Ann.Loraine@uncc.edu>
Date: Fri, May 20, 2016 at 4:22 PM
Subject: Re: IGB slow with large quickloads, even if no annotation is selected

Hello again Arnaud,

I just wanted to let you know that we are still looking for a resolution to your issue and will keep you posted on anything we find. In the meantime, would you mind sharing the link to your large Quickload site so that I can use it for testing purposes while trying to reproduce this issue?

Thanks again,

Mason Meyer
IGB Support Specialist

From: Arnaud Ceol <arnaud.ceol@iit.it>
To: Mason Meyer <mmeyer20@uncc.edu>
CC: Norris, David <dcnorris@uncc.edu>; Ann Loraine <Ann.Loraine@uncc.edu>
Date: Mon, May 23, 2016 at 5:15 AM
Subject: Re: IGB slow with large quickloads, even if no annotation is selected

Hi Mason,

Unfortunately I cannot give you access to our quickload server: it contains private data from our laboratories and can be accessed only from behind our VPN.

Nevertheless, I've created an "anonymized" copy of the quickload that I've attached to this mail. Although it links to non-existing data, I've tested it and it allowed me to reproduce the problem:

1) Choose genome version: Mus musculus Jul 2007 (the one for which we have most data)

2) Go to "advanced search", insert "myc", double click on the items found one after the other: the zoom is instantaneous.

3) add the quickload server

4) Go to "advanced search", insert "myc", double click on the items found one after the other: the zoom takes up to a few seconds

5) disable the quickload server

6) Go to "advanced search", insert "myc", double click on the items found one after the other: the zoom is instantaneous again.

Here the difference is not that big (a few seconds), but it should be enough for you to test it (in my experience it is becomes bigger with other queries).

thanks again,

Arnaud

From:Mason Meyer <mmeyer20@uncc.edu>
To: Arnaud Ceol <arnaud.ceol@iit.it>
CC: Norris, David <dcnorris@uncc.edu>; Ann Loraine <Ann.Loraine@uncc.edu>
Date: Wed, May 25, 2016 at 3:39 PM
Subject: Re: IGB slow with large quickloads, even if no annotation is selected

Hello again Arnaud,

Thank you for sharing your example Quickload with us. I completely understand that you are not able to share access to the real Quickload site for reasons of privacy and I hope you do not mind that I asked for it initially.

Thanks to your example Quickload site and instructions, I was able to reproduce your problem. Our team is currently looking into ways of fixing this issue in the hopes of finding a quick resolution for you and your group. I will be sure to give you a status update over the next couple of days as we learn more about this issue. Thank you very much for pointing out this problem so that we can work to resolve it. Please continue to let us know if you have additional feedback for our team.

Thanks again,

Mason Meyer

From: Arnaud Ceol <arnaud.ceol@iit.it>
To: Mason Meyer <mmeyer20@uncc.edu>
CC: Norris, David <dcnorris@uncc.edu>; Ann Loraine <Ann.Loraine@uncc.edu>
Date: Thu, May 26, 2016 at 10:40 AM
Subject: Re: IGB slow with large quickloads, even if no annotation is selected

Hello Mason,

On 05/25/2016 09:39 PM, Meyer, Mason wrote:
> Hello again Arnaud,
>
> Thank you for sharing your example Quickload with us. I completely understand that you are not able to share access to the real Quickload site for reasons of privacy and I hope you do not mind that I asked for it initially.
>
Don't worry, it is perfectly fine to ask for an example in order to reproduce the issue.

I've seen the entry added for this issue on jira. I would just like to add that I have also this problem with Linux (Fedora 23, Oracle Java 1.8).

best,

Arnaud

From: Arnaud Ceol <arnaud.ceol@iit.it>
To: Mason Meyer <mmeyer20@uncc.edu>
CC: Norris, David <dcnorris@uncc.edu>; Ann Loraine <Ann.Loraine@uncc.edu>
Date: Thu, May 26, 2016 at 8:52 PM
Subject: Re: IGB slow with large quickloads, even if no annotation is selected

Hello again Arnaud,

Thanks for letting us know that you were also experiencing this problem on Linux, because while testing, we could reproduce the problem on Windows and Mac, but not on Linux. Fortunately, it looks like David has found a solution to your problem and we are planning to do a minor release soon to fix this bug, along with a few others. I will be sure to contact you again around the time of release to verify that the issue you were experiencing has been resolved. Thank you very much for your help in finding this issue. I look forward to speaking with you again soon.

Thanks again,

Mason Meyer