Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-07-05 Thread Thon Deboer
Is this conference open for anyone or just (self appointed?) Czars? :)
Regards,

Thon de Boer, Ph.D.
Bioinformatics Guru
+1-650-799-6839
thondeb...@me.com
LinkedIn Profile




On Jun 28, 2012, at 2:14 AM, Sebastian Schaaf wrote:

 Also hello to everyone,
 
 As I browsed through those tabs which are open for weeks I rediscovered the 
 online survey Interested in Deploying Your Own Local Galaxy? connected to 
 this thread here. The last response I could find in this context was the one 
 below which was written by Ann.
 To make it short: did anything happen in the meantime, has there been any 
 telephone conference, is there still any interest out there? I filled out the 
 survey and ask myself wether it makes still sense to submit the form. 
 Regarding the fact I can participate in this year's Galaxy Developers 
 Conference (GCC in Chicago) I would be quite happy if some contacts may arise 
 from this thread or the conference or both in a mutual way (which would be 
 somewhat perfect). The heavily discussed topic regarding time zones should 
 not prevent us from going ahead.
 
 Best regards and thanks in advance,
 
 Sebastian Schaaf
 (Munich, Germany)
 
 
 Ann Black-Ziegelbein schrieb:
 Hello everyone!
 
 Here is a link to a brief survey about how you are using, or plan to use 
 Galaxy locally.  If you could take a moment to complete the survey, it will 
 help steer the teleconferences as we get going (and also alleviate having to 
 spend time on the call providing the same background info).  The results of 
 the survey will be made public off of a new wiki site that Galaxy's Dave 
 Clements is arranging for the group - thanks Dave!
 
 Web Survey: 
 https://docs.google.com/spreadsheet/viewform?formkey=dGJZcmxEWDQ3aERPNmlBaDl1eHVsQ3c6MQ
 
 Once the teleconference infrastructure details are in place and finalized, I 
 will send out a web poll to see if we can find a time that works for the 
 majority.
 
 Thanks,
 
 Ann Black-Ziegelbein
 
 
 
 On 4/27/2012 2:14 PM, Ryan Golhar wrote:
 This is a great idea.
 
 On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
 annbl...@eng.uiowa.edu mailto:annbl...@eng.uiowa.edu wrote:
 
Hi everyone -
 
Here at the University of Iowa we are working on deploying Galaxy
locally for campus wide access.  I am interested in forming a
community of other institutions trying to deploy Galaxy locally
and mange/operate it on a broad level.  Is anyone else?   If
there is enough interest, possibly we could have  a community
conference call every other month to have an open discussion on
how we are all deploying galaxy, customizations we are making,
problems we are encountering, bugs, and any add-on operations
management for galaxy being developed, etc.
 
Would love to hear from others operating Galaxy or in process of
standing up a local deployment.
 
Thanks!
 
Ann Black-Ziegelbein
___
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 ___
 Please keep all replies on the list by using reply all
 in your mail client.  To manage your subscriptions to this
 and other Galaxy lists, please use the interface at:
 
   http://lists.bx.psu.edu/
 
 
 -- 
 Sebastian Schaaf, M.Sc. Bioinformatics
 Chair of Biometry and Bioinformatics
 Department of Medical Information Sciences, Biometry and Epidemiology
 University of Munich
 Marchioninistr. 15, K U1 (postal)
 Marchioninistr. 17, U 006 (office)
 D-81377 Munich (Germany)
 Tel: +49 89 2180-78229
 
 ___
 Please keep all replies on the list by using reply all
 in your mail client.  To manage your subscriptions to this
 and other Galaxy lists, please use the interface at:
 
 http://lists.bx.psu.edu/

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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-07-05 Thread Ann Black-Ziegelbein

For anyone :) Please join us on Monday -

Thanks,

Ann

On 7/5/2012 4:15 PM, Thon Deboer wrote:

Is this conference open for anyone or just (self appointed?) Czars? :)
Regards,

Thon de Boer, Ph.D.
Bioinformatics Guru
+1-650-799-6839
thondeb...@me.com mailto:thondeb...@me.com
LinkedIn Profile http://www.linkedin.com/pub/thon-de-boer/1/1ba/a5b




On Jun 28, 2012, at 2:14 AM, Sebastian Schaaf wrote:


Also hello to everyone,

As I browsed through those tabs which are open for weeks I 
rediscovered the online survey Interested in Deploying Your Own 
Local Galaxy? connected to this thread here. The last response I 
could find in this context was the one below which was written by Ann.
To make it short: did anything happen in the meantime, has there been 
any telephone conference, is there still any interest out there? I 
filled out the survey and ask myself wether it makes still sense to 
submit the form. Regarding the fact I can participate in this year's 
Galaxy Developers Conference (GCC in Chicago) I would be quite happy 
if some contacts may arise from this thread or the conference or both 
in a mutual way (which would be somewhat perfect). The heavily 
discussed topic regarding time zones should not prevent us from going 
ahead.


Best regards and thanks in advance,

Sebastian Schaaf
(Munich, Germany)


Ann Black-Ziegelbein schrieb:

Hello everyone!

Here is a link to a brief survey about how you are using, or plan to 
use Galaxy locally.  If you could take a moment to complete the 
survey, it will help steer the teleconferences as we get going (and 
also alleviate having to spend time on the call providing the same 
background info).  The results of the survey will be made public off 
of a new wiki site that Galaxy's Dave Clements is arranging for the 
group - thanks Dave!


Web Survey: 
https://docs.google.com/spreadsheet/viewform?formkey=dGJZcmxEWDQ3aERPNmlBaDl1eHVsQ3c6MQ


Once the teleconference infrastructure details are in place and 
finalized, I will send out a web poll to see if we can find a time 
that works for the majority.


Thanks,

Ann Black-Ziegelbein



On 4/27/2012 2:14 PM, Ryan Golhar wrote:

This is a great idea.

On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
annbl...@eng.uiowa.edu mailto:annbl...@eng.uiowa.edu 
mailto:annbl...@eng.uiowa.edu wrote:


   Hi everyone -

   Here at the University of Iowa we are working on deploying Galaxy
   locally for campus wide access.  I am interested in forming a
   community of other institutions trying to deploy Galaxy locally
   and mange/operate it on a broad level.  Is anyone else?   If
   there is enough interest, possibly we could have  a community
   conference call every other month to have an open discussion on
   how we are all deploying galaxy, customizations we are making,
   problems we are encountering, bugs, and any add-on operations
   management for galaxy being developed, etc.

   Would love to hear from others operating Galaxy or in process of
   standing up a local deployment.

   Thanks!

   Ann Black-Ziegelbein
   ___
   Please keep all replies on the list by using reply all
   in your mail client.  To manage your subscriptions to this
   and other Galaxy lists, please use the interface at:

http://lists.bx.psu.edu/






___
Please keep all replies on the list by using reply all
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

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--
Sebastian Schaaf, M.Sc. Bioinformatics
Chair of Biometry and Bioinformatics
Department of Medical Information Sciences, Biometry and Epidemiology
University of Munich
Marchioninistr. 15, K U1 (postal)
Marchioninistr. 17, U 006 (office)
D-81377 Munich (Germany)
Tel: +49 89 2180-78229

___
Please keep all replies on the list by using reply all
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

http://lists.bx.psu.edu/




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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-06-28 Thread Sebastian Schaaf

Also hello to everyone,

As I browsed through those tabs which are open for weeks I rediscovered 
the online survey Interested in Deploying Your Own Local Galaxy? 
connected to this thread here. The last response I could find in this 
context was the one below which was written by Ann.
To make it short: did anything happen in the meantime, has there been 
any telephone conference, is there still any interest out there? I 
filled out the survey and ask myself wether it makes still sense to 
submit the form. Regarding the fact I can participate in this year's 
Galaxy Developers Conference (GCC in Chicago) I would be quite happy if 
some contacts may arise from this thread or the conference or both in a 
mutual way (which would be somewhat perfect). The heavily discussed 
topic regarding time zones should not prevent us from going ahead.


Best regards and thanks in advance,

Sebastian Schaaf
(Munich, Germany)


Ann Black-Ziegelbein schrieb:

Hello everyone!

Here is a link to a brief survey about how you are using, or plan to 
use Galaxy locally.  If you could take a moment to complete the 
survey, it will help steer the teleconferences as we get going (and 
also alleviate having to spend time on the call providing the same 
background info).  The results of the survey will be made public off 
of a new wiki site that Galaxy's Dave Clements is arranging for the 
group - thanks Dave!


Web Survey: 
https://docs.google.com/spreadsheet/viewform?formkey=dGJZcmxEWDQ3aERPNmlBaDl1eHVsQ3c6MQ


Once the teleconference infrastructure details are in place and 
finalized, I will send out a web poll to see if we can find a time 
that works for the majority.


Thanks,

Ann Black-Ziegelbein



On 4/27/2012 2:14 PM, Ryan Golhar wrote:

This is a great idea.

On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
annbl...@eng.uiowa.edu mailto:annbl...@eng.uiowa.edu wrote:


Hi everyone -

Here at the University of Iowa we are working on deploying Galaxy
locally for campus wide access.  I am interested in forming a
community of other institutions trying to deploy Galaxy locally
and mange/operate it on a broad level.  Is anyone else?   If
there is enough interest, possibly we could have  a community
conference call every other month to have an open discussion on
how we are all deploying galaxy, customizations we are making,
problems we are encountering, bugs, and any add-on operations
management for galaxy being developed, etc.

Would love to hear from others operating Galaxy or in process of
standing up a local deployment.

Thanks!

Ann Black-Ziegelbein
___
Please keep all replies on the list by using reply all
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

http://lists.bx.psu.edu/






___
Please keep all replies on the list by using reply all
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

   http://lists.bx.psu.edu/



--
Sebastian Schaaf, M.Sc. Bioinformatics
Chair of Biometry and Bioinformatics
Department of Medical Information Sciences, Biometry and Epidemiology
University of Munich
Marchioninistr. 15, K U1 (postal)
Marchioninistr. 17, U 006 (office)
D-81377 Munich (Germany)
Tel: +49 89 2180-78229

___
Please keep all replies on the list by using reply all
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

 http://lists.bx.psu.edu/


Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-06-28 Thread Ann Black-Ziegelbein

Hi All -

I have dropped the ball on this one.  We at Iowa have gotten bogged down 
in storage issues with galaxy (our existing storage was crashing) and 
have been spending all my time evaluating different storage solutions 
under load: zfs, gluster, lustre, nfs for our galaxy and high 
performance compute cluster. This week our testing and evaluation is 
almost completed.


I have a proposed agenda for our first call I need to circulate as well 
I have lined up an online web conference solution for us to try which 
will allow our calls to be recorded and posted for playback.  I am 
actually talking to Dave today and hopefully I will get something out 
for a call in early to mid July.


Sorry folks, I have been busy and it has been hard to get back to this.

Ann

On 6/28/2012 4:14 AM, Sebastian Schaaf wrote:

Also hello to everyone,

As I browsed through those tabs which are open for weeks I 
rediscovered the online survey Interested in Deploying Your Own Local 
Galaxy? connected to this thread here. The last response I could find 
in this context was the one below which was written by Ann.
To make it short: did anything happen in the meantime, has there been 
any telephone conference, is there still any interest out there? I 
filled out the survey and ask myself wether it makes still sense to 
submit the form. Regarding the fact I can participate in this year's 
Galaxy Developers Conference (GCC in Chicago) I would be quite happy 
if some contacts may arise from this thread or the conference or both 
in a mutual way (which would be somewhat perfect). The heavily 
discussed topic regarding time zones should not prevent us from going 
ahead.


Best regards and thanks in advance,

Sebastian Schaaf
(Munich, Germany)


Ann Black-Ziegelbein schrieb:

Hello everyone!

Here is a link to a brief survey about how you are using, or plan to 
use Galaxy locally.  If you could take a moment to complete the 
survey, it will help steer the teleconferences as we get going (and 
also alleviate having to spend time on the call providing the same 
background info).  The results of the survey will be made public off 
of a new wiki site that Galaxy's Dave Clements is arranging for the 
group - thanks Dave!


Web Survey: 
https://docs.google.com/spreadsheet/viewform?formkey=dGJZcmxEWDQ3aERPNmlBaDl1eHVsQ3c6MQ


Once the teleconference infrastructure details are in place and 
finalized, I will send out a web poll to see if we can find a time 
that works for the majority.


Thanks,

Ann Black-Ziegelbein



On 4/27/2012 2:14 PM, Ryan Golhar wrote:

This is a great idea.

On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
annbl...@eng.uiowa.edu mailto:annbl...@eng.uiowa.edu wrote:


Hi everyone -

Here at the University of Iowa we are working on deploying Galaxy
locally for campus wide access.  I am interested in forming a
community of other institutions trying to deploy Galaxy locally
and mange/operate it on a broad level.  Is anyone else?   If
there is enough interest, possibly we could have  a community
conference call every other month to have an open discussion on
how we are all deploying galaxy, customizations we are making,
problems we are encountering, bugs, and any add-on operations
management for galaxy being developed, etc.

Would love to hear from others operating Galaxy or in process of
standing up a local deployment.

Thanks!

Ann Black-Ziegelbein
___
Please keep all replies on the list by using reply all
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

http://lists.bx.psu.edu/






___
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in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

   http://lists.bx.psu.edu/





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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-06-28 Thread Sebastian Schaaf

Thanks Ann for your quick reply, sounds good.
I just submitted my info in reply to the online survey.

Regarding your issues: don't worry, I think we all suffer from the same 
things, basically :). No need to apologize. As I stated in the submitted 
web form we had similar problems with file systems and big data. Maybe a 
topic for our conversations.


Sebastian


Ann Black-Ziegelbein schrieb:

Hi All -

I have dropped the ball on this one.  We at Iowa have gotten bogged 
down in storage issues with galaxy (our existing storage was crashing) 
and have been spending all my time evaluating different storage 
solutions under load: zfs, gluster, lustre, nfs for our galaxy and 
high performance compute cluster. This week our testing and evaluation 
is almost completed.


I have a proposed agenda for our first call I need to circulate as 
well I have lined up an online web conference solution for us to try 
which will allow our calls to be recorded and posted for playback.  I 
am actually talking to Dave today and hopefully I will get something 
out for a call in early to mid July.


Sorry folks, I have been busy and it has been hard to get back to this.

Ann

On 6/28/2012 4:14 AM, Sebastian Schaaf wrote:

Also hello to everyone,

As I browsed through those tabs which are open for weeks I 
rediscovered the online survey Interested in Deploying Your Own 
Local Galaxy? connected to this thread here. The last response I 
could find in this context was the one below which was written by Ann.
To make it short: did anything happen in the meantime, has there been 
any telephone conference, is there still any interest out there? I 
filled out the survey and ask myself wether it makes still sense to 
submit the form. Regarding the fact I can participate in this year's 
Galaxy Developers Conference (GCC in Chicago) I would be quite happy 
if some contacts may arise from this thread or the conference or both 
in a mutual way (which would be somewhat perfect). The heavily 
discussed topic regarding time zones should not prevent us from going 
ahead.


Best regards and thanks in advance,

Sebastian Schaaf
(Munich, Germany)


Ann Black-Ziegelbein schrieb:

Hello everyone!

Here is a link to a brief survey about how you are using, or plan to 
use Galaxy locally.  If you could take a moment to complete the 
survey, it will help steer the teleconferences as we get going (and 
also alleviate having to spend time on the call providing the same 
background info).  The results of the survey will be made public off 
of a new wiki site that Galaxy's Dave Clements is arranging for the 
group - thanks Dave!


Web Survey: 
https://docs.google.com/spreadsheet/viewform?formkey=dGJZcmxEWDQ3aERPNmlBaDl1eHVsQ3c6MQ


Once the teleconference infrastructure details are in place and 
finalized, I will send out a web poll to see if we can find a time 
that works for the majority.


Thanks,

Ann Black-Ziegelbein



On 4/27/2012 2:14 PM, Ryan Golhar wrote:

This is a great idea.

On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
annbl...@eng.uiowa.edu mailto:annbl...@eng.uiowa.edu wrote:


Hi everyone -

Here at the University of Iowa we are working on deploying Galaxy
locally for campus wide access.  I am interested in forming a
community of other institutions trying to deploy Galaxy locally
and mange/operate it on a broad level.  Is anyone else?   If
there is enough interest, possibly we could have  a community
conference call every other month to have an open discussion on
how we are all deploying galaxy, customizations we are making,
problems we are encountering, bugs, and any add-on operations
management for galaxy being developed, etc.

Would love to hear from others operating Galaxy or in process of
standing up a local deployment.

Thanks!

Ann Black-Ziegelbein
___
Please keep all replies on the list by using reply all
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

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--
Sebastian Schaaf, M.Sc. Bioinformatics
Chair of Biometry and Bioinformatics
Department of Medical Information Sciences, Biometry and Epidemiology
University of Munich
Marchioninistr. 15, K U1 (postal)
Marchioninistr. 17, U 006 (office)
D-81377 Munich (Germany)
Tel: +49 89 2180-78229

___
Please keep all replies on the list by using reply all
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:

 http://lists.bx.psu.edu/


Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-05-10 Thread Edward Hills
RE: The chat about NZ/AUS communication us here at Otago University
(Dunedin, NZ) are very very keen for this.

Please email us at edward.hi...@otago.ac.nz if this does decide to take off :)

Cheers,
Ed
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-05-10 Thread Greg Edwards
Clare,

I'm running an AWS Cloudman instance (on US East region) from Sydney for a
developing suite of proteomics PTM tools in Perl, for use mainly by
http://sydney.edu.au/science/molecular_bioscience/  and
http://www.sdu.dk/en/om_sdu/institutter_centre/bmb_biokemi_og_molekylaer_biologi

Hard to say if a local group is fully needed yet, but we could try. A
multi-site audio or video conference is pretty easy these days. There are
always unexpected insights from talking direct to others. I'd be happy to
take part. But the main Galaxy dev team in US are so good on the mailing
lists, we don't want to impact that.

Not a very insightful comment ! I used to be indecisive but now I'm not so
sure ...

Greg Edwards


On Thu, May 10, 2012 at 3:20 PM, Clare Sloggett s...@unimelb.edu.au wrote:

 Hi all,

 I'm at one of the places Ross mentions (VLSCI), with Enis - among
 other things we're deploying Galaxy CloudMan on the new Australian
 Research Cloud.

 Just from talking to people I feel that local institutions that have
 installed their own Galaxy, and are customising it, wrapping tools for
 the researchers they support etc, do end up struggling with a lot of
 the same problems. I think though that as Ross is suggesting in a lot
 of cases these needs could be filled by the existing galaxy-user and
 galaxy-dev mailing lists (I find sometimes people can be quite
 hesitant to post a question until they have spent a lot of time on the
 problem).

 I do like the idea of a local Australia-New Zealand Galaxy group for
 developers / techie bioinformaticians, but more for the sake of
 face-to-face interaction and perhaps local-timezone teleconferences; I
 don't want to end up just duplicating existing mailing lists. I'm not
 sure of the best way to make such a group take off or how much
 interest there would be. If there are other Australian / New Zealand
 or local timezone groups reading this list and you're interested, let
 us know!

 Clare

 On 30 April 2012 13:35, Ross ross.laza...@gmail.com wrote:
  To all interested in Dave's suggestion:
 
  IMHO, an Australian/New Zealand Galaxy user/deployer/developer group
  will be worth setting up and will be viable if it solves specific
  problems that aren't adequately addressed by existing networks and
  communication channels - otherwise it will be JAFUG (just another
  fleeting user group) and will likely fizzle due to lack of genuine
  utility to potential participants.
 
  EG: One challenge for us when it comes to (eg) the proposed
  teleconferences is the tyranny of time zones - being 14 hours ahead of
  EST eg in Melbourne/Sydney. The other big challenge is that travel to
  meetings in Europe or the USA is expensive and exhausting, so
  workshops and hands on training are harder to get to. In general, I
  think we're probably going to be able to find plenty of problems to do
  with geographic isolation and maybe even some specific Australian
  challenges - but let's be clear about exactly what those are before we
  start building any structures. One problem I keep seeing is that there
  are many organisations happy to invest in hardware infrastructure, but
  far less willing to invest in the training and staff development
  needed for success.
 
  Two things I'd like to suggest to help with planning:
 
  1) to get a better idea of scope, it would be very handy to assemble a
  register of potential organisations and their primary contacts. I
  already know of some large Australian organisations investing heavily
  in Galaxy deployment - eg - VLSCI in Melbourne; UQ in Brisbane, CSIRO
  all over the place, the Victorian DPI, AGRF, and the BakerIDI where
  I'm based - no doubt there are plenty of others too?
 
  2) to make sure the idea is viable, it would be useful to collect some
  specific deployment challenges that people are experiencing that some
  kind of local user's group could help overcome?
 
  One focus I have a personal interest in exploring would be in face to
  face educational activities: eg for local Galaxy instance system
  administrators? Local tool developers? Local biologist users in
  specific contexts like short read sequencing?
 
  Suggestions welcomed...
 
 
  On Mon, Apr 30, 2012 at 12:37 PM, Dave Clements
  cleme...@galaxyproject.org wrote:
  Hi Ryan, Ann, and everyone else
 
  I second what Nate says (I always do :-).  I too like that it is user
  driven.  And, while I am not a developer, I do plan on being on the
 call as
  often as possible.
 
  I can also offer my support for logistical and any other support.  Ann,
  please let me know if you want help with getting this going and getting
 the
  word out.
 
 
  On a related note,   With Matloob's email, we have at least 3
  organizations in Australia and New Zealand that are interested. I know
 that
  there are many more Galaxy installations in that part of the world (and
 you
  have Enis and Ross in Australia now).  Would this be a good opportunity
 to
  set up the first (to my knowledge) 

Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-05-09 Thread Clare Sloggett
Hi all,

I'm at one of the places Ross mentions (VLSCI), with Enis - among
other things we're deploying Galaxy CloudMan on the new Australian
Research Cloud.

Just from talking to people I feel that local institutions that have
installed their own Galaxy, and are customising it, wrapping tools for
the researchers they support etc, do end up struggling with a lot of
the same problems. I think though that as Ross is suggesting in a lot
of cases these needs could be filled by the existing galaxy-user and
galaxy-dev mailing lists (I find sometimes people can be quite
hesitant to post a question until they have spent a lot of time on the
problem).

I do like the idea of a local Australia-New Zealand Galaxy group for
developers / techie bioinformaticians, but more for the sake of
face-to-face interaction and perhaps local-timezone teleconferences; I
don't want to end up just duplicating existing mailing lists. I'm not
sure of the best way to make such a group take off or how much
interest there would be. If there are other Australian / New Zealand
or local timezone groups reading this list and you're interested, let
us know!

Clare

On 30 April 2012 13:35, Ross ross.laza...@gmail.com wrote:
 To all interested in Dave's suggestion:

 IMHO, an Australian/New Zealand Galaxy user/deployer/developer group
 will be worth setting up and will be viable if it solves specific
 problems that aren't adequately addressed by existing networks and
 communication channels - otherwise it will be JAFUG (just another
 fleeting user group) and will likely fizzle due to lack of genuine
 utility to potential participants.

 EG: One challenge for us when it comes to (eg) the proposed
 teleconferences is the tyranny of time zones - being 14 hours ahead of
 EST eg in Melbourne/Sydney. The other big challenge is that travel to
 meetings in Europe or the USA is expensive and exhausting, so
 workshops and hands on training are harder to get to. In general, I
 think we're probably going to be able to find plenty of problems to do
 with geographic isolation and maybe even some specific Australian
 challenges - but let's be clear about exactly what those are before we
 start building any structures. One problem I keep seeing is that there
 are many organisations happy to invest in hardware infrastructure, but
 far less willing to invest in the training and staff development
 needed for success.

 Two things I'd like to suggest to help with planning:

 1) to get a better idea of scope, it would be very handy to assemble a
 register of potential organisations and their primary contacts. I
 already know of some large Australian organisations investing heavily
 in Galaxy deployment - eg - VLSCI in Melbourne; UQ in Brisbane, CSIRO
 all over the place, the Victorian DPI, AGRF, and the BakerIDI where
 I'm based - no doubt there are plenty of others too?

 2) to make sure the idea is viable, it would be useful to collect some
 specific deployment challenges that people are experiencing that some
 kind of local user's group could help overcome?

 One focus I have a personal interest in exploring would be in face to
 face educational activities: eg for local Galaxy instance system
 administrators? Local tool developers? Local biologist users in
 specific contexts like short read sequencing?

 Suggestions welcomed...


 On Mon, Apr 30, 2012 at 12:37 PM, Dave Clements
 cleme...@galaxyproject.org wrote:
 Hi Ryan, Ann, and everyone else

 I second what Nate says (I always do :-).  I too like that it is user
 driven.  And, while I am not a developer, I do plan on being on the call as
 often as possible.

 I can also offer my support for logistical and any other support.  Ann,
 please let me know if you want help with getting this going and getting the
 word out.


 On a related note,   With Matloob's email, we have at least 3
 organizations in Australia and New Zealand that are interested. I know that
 there are many more Galaxy installations in that part of the world (and you
 have Enis and Ross in Australia now).  Would this be a good opportunity to
 set up the first (to my knowledge) regional user group?  If anyone thinks
 this is a good idea, please respond (and create a new thread).


 Finally, Ann, thanks for starting this.

 Dave C



 I also  that both Ross and Enis are in Australia now



 On Sun, Apr 29, 2012 at 10:24 AM, Nate Coraor n...@bx.psu.edu wrote:

 Hi Ryan,

 I like that it's user-directed, and we could be there to provide input,
 although if help is needed to organize the call we could probably assist
 with that.  I plan to be on the call as often as my schedule allows, and I
 believe some of the other developers on the team would also be interested.

 --nate

 On Apr 28, 2012, at 8:49 AM, Ryan Golhar wrote:

  One question - Are the Galaxy developers involved in this or is this for
  user's only?  It may be helpful to have developers on the call to provide
  information that users do not necessarily have.

 

Re: [galaxy-dev] Interested in speaking with other, institutions deploying Galaxy locally?

2012-05-02 Thread Sarah Maman

Hello,

This is a great idea. I'm interested.

Thanks !
Sarah Maman


--

Message: 1
Date: Fri, 27 Apr 2012 13:45:16 -0500
From: Ann Black-Ziegelbein annbl...@eng.uiowa.edu
To: galaxy-dev@lists.bx.psu.edu
Subject: [galaxy-dev] Interested in speaking with other institutions
deploying Galaxy locally?
Message-ID: 4f9ae93c.20...@eng.uiowa.edu
Content-Type: text/plain; charset=ISO-8859-1; format=flowed

Hi everyone -

Here at the University of Iowa we are working on deploying Galaxy 
locally for campus wide access.  I am interested in forming a community 
of other institutions trying to deploy Galaxy locally and mange/operate 
it on a broad level.  Is anyone else?   If there is enough interest, 
possibly we could have  a community conference call every other month to 
have an open discussion on how we are all deploying galaxy, 
customizations we are making, problems we are encountering, bugs, and 
any add-on operations management for galaxy being developed, etc.


Would love to hear from others operating Galaxy or in process of 
standing up a local deployment.


Thanks!

Ann Black-Ziegelbein


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Re: [galaxy-dev] Interested in speaking with other, institutions deploying Galaxy locally?

2012-05-02 Thread Peter van Heusden
We have a small collaboration between institutions in the greater Cape
Town region (UCT, UWC, Stellenbosch) on this topic (the so-called
Pipelines group). If anyone in South Africa is interested in talking
about these topics, please get in touch because we could share expertise.

Peter
SANBI - UWC

On 02/05/2012 09:49, Sarah Maman wrote:
 Hello,

 This is a great idea. I'm interested.

 Thanks !
 Sarah Maman


 --

 Message: 1
 Date: Fri, 27 Apr 2012 13:45:16 -0500
 From: Ann Black-Ziegelbein annbl...@eng.uiowa.edu
 To: galaxy-dev@lists.bx.psu.edu
 Subject: [galaxy-dev] Interested in speaking with other institutions
 deploying Galaxy locally?
 Message-ID: 4f9ae93c.20...@eng.uiowa.edu
 Content-Type: text/plain; charset=ISO-8859-1; format=flowed

 Hi everyone -

 Here at the University of Iowa we are working on deploying Galaxy
 locally for campus wide access.  I am interested in forming a
 community of other institutions trying to deploy Galaxy locally and
 mange/operate it on a broad level.  Is anyone else?   If there is
 enough interest, possibly we could have  a community conference call
 every other month to have an open discussion on how we are all
 deploying galaxy, customizations we are making, problems we are
 encountering, bugs, and any add-on operations management for galaxy
 being developed, etc.

 Would love to hear from others operating Galaxy or in process of
 standing up a local deployment.

 Thanks!

 Ann Black-Ziegelbein


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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-05-02 Thread Ann Black-Ziegelbein

Hello everyone!

Here is a link to a brief survey about how you are using, or plan to use 
Galaxy locally.  If you could take a moment to complete the survey, it 
will help steer the teleconferences as we get going (and also alleviate 
having to spend time on the call providing the same background info).  
The results of the survey will be made public off of a new wiki site 
that Galaxy's Dave Clements is arranging for the group - thanks Dave!


Web Survey: 
https://docs.google.com/spreadsheet/viewform?formkey=dGJZcmxEWDQ3aERPNmlBaDl1eHVsQ3c6MQ


Once the teleconference infrastructure details are in place and 
finalized, I will send out a web poll to see if we can find a time that 
works for the majority.


Thanks,

Ann Black-Ziegelbein



On 4/27/2012 2:14 PM, Ryan Golhar wrote:

This is a great idea.

On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
annbl...@eng.uiowa.edu mailto:annbl...@eng.uiowa.edu wrote:


Hi everyone -

Here at the University of Iowa we are working on deploying Galaxy
locally for campus wide access.  I am interested in forming a
community of other institutions trying to deploy Galaxy locally
and mange/operate it on a broad level.  Is anyone else?   If there
is enough interest, possibly we could have  a community conference
call every other month to have an open discussion on how we are
all deploying galaxy, customizations we are making, problems we
are encountering, bugs, and any add-on operations management for
galaxy being developed, etc.

Would love to hear from others operating Galaxy or in process of
standing up a local deployment.

Thanks!

Ann Black-Ziegelbein
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-05-02 Thread Greg Edwards
Ann,

I'm interested. I'm running a Galaxy instance on AWS Cloud, using the
standard Galaxy Cloudman. Based in Sydney, Aus and also users at SDU,
Odense, Denmark. My timezone for a conf call would be UTC +10 as for some
others here.

Greg Edwards


On Sat, Apr 28, 2012 at 4:45 AM, Ann Black-Ziegelbein 
annbl...@eng.uiowa.edu wrote:

 Hi everyone -

 Here at the University of Iowa we are working on deploying Galaxy locally
 for campus wide access.  I am interested in forming a community of other
 institutions trying to deploy Galaxy locally and mange/operate it on a
 broad level.  Is anyone else?   If there is enough interest, possibly we
 could have  a community conference call every other month to have an open
 discussion on how we are all deploying galaxy, customizations we are
 making, problems we are encountering, bugs, and any add-on operations
 management for galaxy being developed, etc.

 Would love to hear from others operating Galaxy or in process of standing
 up a local deployment.

 Thanks!

 Ann Black-Ziegelbein
 __**_
 Please keep all replies on the list by using reply all
 in your mail client.  To manage your subscriptions to this
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-- 
Greg Edwards,
Port Jackson Bioinformatics
gedwar...@gmail.com
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-30 Thread Gianmauro Cuccuru
On 04/27/2012 08:45 PM, Ann Black-Ziegelbein wrote:
 Hi everyone -

 Here at the University of Iowa we are working on deploying Galaxy
 locally for campus wide access.  I am interested in forming a
 community of other institutions trying to deploy Galaxy locally and
 mange/operate it on a broad level.  Is anyone else?   If there is
 enough interest, possibly we could have  a community conference call
 every other month to have an open discussion on how we are all
 deploying galaxy, customizations we are making, problems we are
 encountering, bugs, and any add-on operations management for galaxy
 being developed, etc.

I'm interested. We have different local Galaxy running and we are on the
way to connect them to our sequencing and genotyping platform.

Glad to partecipate,
Mauro

-- 
Gianmauro Cuccuru 
CRS4 Bioinformatica
POLARIS Edificio 3, Loc. Piscina Manna
09010 Pula (CA), Italy
http://www.bioinformatica.crs4.it 
phone: +390709250428
email: gma...@crs4.it



 Would love to hear from others operating Galaxy or in process of
 standing up a local deployment.

 Thanks!

 Ann Black-Ziegelbein
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-30 Thread Hans-Rudolf Hotz

Hi Ann

I am definitively interested in any form of collaboration - thank you 
very much for bringing up this idea!


However, I also share some of the concerns which have been raised by 
others. Even in Europe, we sometimes struggle to coordinate a conference 
call with the Americas and very often the quality is so bad it is 
impossible to have a discussion. Also, looking at the success of your 
original e-mail, now imagine a conference call with more than 20 
participants...


You can call me 'old fashion' but I prefer face-to-face meetings. So I 
am looking very much forward to Chicago this summer. I am aware, due to 
costs and other reasons not everybody will be able to attend GCC.


Having regional Galaxy meetings is one solution. Together with the 
Galaxy developers, I intended to organize an European Galaxy workshop as 
part of ECCB2012 in Basel in September. Unfortunately, the ECCB 
organizers did approve our proposal. I will now organize a smaller 
(Swiss) workshop in fall which will be open to everybody. I'll keep the 
list posted as soon as it has been finalized.


Nevertheless, I hope we can create an even better community and I will 
make any effort to take part in any upcoming Galaxy conference calls.



Regards, Hans









On 04/27/2012 08:45 PM, Ann Black-Ziegelbein wrote:

Hi everyone -

Here at the University of Iowa we are working on deploying Galaxy
locally for campus wide access. I am interested in forming a community
of other institutions trying to deploy Galaxy locally and mange/operate
it on a broad level. Is anyone else? If there is enough interest,
possibly we could have a community conference call every other month to
have an open discussion on how we are all deploying galaxy,
customizations we are making, problems we are encountering, bugs, and
any add-on operations management for galaxy being developed, etc.

Would love to hear from others operating Galaxy or in process of
standing up a local deployment.

Thanks!

Ann Black-Ziegelbein
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-30 Thread Zhibin Lu

Hi, 

We have two galaxy instances installed within our institute, and I am very 
interested in communicating with other galaxy users. Please count me in.

Zhibin Lu
Bioinformatics Support: Databases  Applications

Ontario Institute for Cancer Research   
MaRS Centre, South Tower
101 College Street, Suite 800
Toronto, Ontario, Canada M5G 0A3
 
Tel: 647-260-7944
Toll-free: 1-866-678-6427
www.oicr.on.ca


 Date: Fri, 27 Apr 2012 13:45:16 -0500
 From: annbl...@eng.uiowa.edu
 To: galaxy-dev@lists.bx.psu.edu
 Subject: [galaxy-dev] Interested in speaking with other institutions  
 deploying Galaxy locally?
 
 Hi everyone -
 
 Here at the University of Iowa we are working on deploying Galaxy 
 locally for campus wide access.  I am interested in forming a community 
 of other institutions trying to deploy Galaxy locally and mange/operate 
 it on a broad level.  Is anyone else?   If there is enough interest, 
 possibly we could have  a community conference call every other month to 
 have an open discussion on how we are all deploying galaxy, 
 customizations we are making, problems we are encountering, bugs, and 
 any add-on operations management for galaxy being developed, etc.
 
 Would love to hear from others operating Galaxy or in process of 
 standing up a local deployment.
 
 Thanks!
 
 Ann Black-Ziegelbein
 ___
 Please keep all replies on the list by using reply all
 in your mail client.  To manage your subscriptions to this
 and other Galaxy lists, please use the interface at:
 
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-30 Thread Ryan Golhar
Agreed.  User driven is good.  Having developer(s) available to answer
questions would be helpful...that's what I was alluding to...

On Sun, Apr 29, 2012 at 10:37 PM, Dave Clements
cleme...@galaxyproject.orgwrote:

 Hi Ryan, Ann, and everyone else

 I second what Nate says (I always do :-).  I too like that it is user
 driven.  And, while I am not a developer, I do plan on being on the call as
 often as possible.

 I can also offer my support for logistical and any other support.  Ann,
 please let me know if you want help with getting this going and getting the
 word out.


 On a related note,   With Matloob's email, we have at least 3
 organizations in Australia and New Zealand that are interested. I know that
 there are many more Galaxy installations in that part of the world (and you
 have Enis and Ross in Australia now).  Would this be a good opportunity to
 set up the first (to my knowledge) regional user group?  If anyone thinks
 this is a good idea, please respond (and create a new thread).


 Finally, Ann, thanks for starting this.

 Dave C



 I also  that both Ross and Enis are in Australia now



 On Sun, Apr 29, 2012 at 10:24 AM, Nate Coraor n...@bx.psu.edu wrote:

 Hi Ryan,

 I like that it's user-directed, and we could be there to provide input,
 although if help is needed to organize the call we could probably assist
 with that.  I plan to be on the call as often as my schedule allows, and I
 believe some of the other developers on the team would also be interested.

 --nate

 On Apr 28, 2012, at 8:49 AM, Ryan Golhar wrote:

  One question - Are the Galaxy developers involved in this or is this
 for user's only?  It may be helpful to have developers on the call to
 provide information that users do not necessarily have.
 

 --
 http://galaxyproject.org/GCC2012 http://galaxyproject.org/wiki/GCC2012
 http://galaxyproject.org/
 http://getgalaxy.org/
 http://usegalaxy.org/
 http://galaxyproject.org/wiki/


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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-30 Thread Ann Black-Ziegelbein
I would like to thank everyone for their responses!  I am working on a 
few things to hopefully get us going in the right direction:


1) a brief online web survey for everyone to fill out that will help us 
gauge the background of those interested in participation and help steer 
content for the first call.  For example, what stage your local Galaxy 
deployment is in ( running for several years with 20+ users, no running 
local Galaxy but interested in hosting one, currently installing and 
configuring, etc).  How many people are you targeting using Galaxy?  
What problem areas have you hit? What customizations have you done? What 
areas are you interested in learning more about in these calls? etc.)   
The results of the survey will be published out to the group.


2) I am working on getting a teleconference with international numbers 
arranged.  I like the idea of having regional groups and maybe 
summaries/any presentation slides can be posted to do cross regional 
sharing.  At the same time - anyone interested (from any geographic 
region) is welcome to join - time zones may not be convenient, however, 
but we will do our best.


3) I will send out a poll to see if we can find the *best* time for our 
first call.  Yes, this will be difficult - but we will pick a time that 
works for the majority.


Stay tuned and looking forward to our first call.  Dave, as always, 
thanks for your help - I will be contacting you shortly.


Ann

On 4/30/2012 9:39 AM, Ryan Golhar wrote:
Agreed.  User driven is good.  Having developer(s) available to answer 
questions would be helpful...that's what I was alluding to...


On Sun, Apr 29, 2012 at 10:37 PM, Dave Clements 
cleme...@galaxyproject.org mailto:cleme...@galaxyproject.org wrote:


Hi Ryan, Ann, and everyone else

I second what Nate says (I always do :-).  I too like that it is
user driven.  And, while I am not a developer, I do plan on being
on the call as often as possible.

I can also offer my support for logistical and any other support. 
Ann, please let me know if you want help with getting this going

and getting the word out.


On a related note,   With Matloob's email, we have at least 3
organizations in Australia and New Zealand that are interested. I
know that there are many more Galaxy installations in that part of
the world (and you have Enis and Ross in Australia now).  Would
this be a good opportunity to set up the first (to my knowledge)
regional user group?  If anyone thinks this is a good idea, please
respond (and create a new thread).


Finally, Ann, thanks for starting this.

Dave C



I also  that both Ross and Enis are in Australia now



On Sun, Apr 29, 2012 at 10:24 AM, Nate Coraor n...@bx.psu.edu
mailto:n...@bx.psu.edu wrote:

Hi Ryan,

I like that it's user-directed, and we could be there to
provide input, although if help is needed to organize the call
we could probably assist with that.  I plan to be on the call
as often as my schedule allows, and I believe some of the
other developers on the team would also be interested.

--nate

On Apr 28, 2012, at 8:49 AM, Ryan Golhar wrote:

 One question - Are the Galaxy developers involved in this or
is this for user's only?  It may be helpful to have developers
on the call to provide information that users do not
necessarily have.


-- 
http://galaxyproject.org/GCC2012

http://galaxyproject.org/wiki/GCC2012
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http://galaxyproject.org/wiki/




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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-29 Thread Nikolai Vazov


Hi, all,

We are in the process of setting up Galaxy as a big university 
framework for the entire university and world-wide free academic access. 
We currently have a portal (www.bioportal.uio.no) which is 
bioinformatics oriented. The Galaxy we are setting up will give access 
to more than 100 applications and will include the following features:


- Apache proxy enabled - implemented
- PostgreSQL located in another host - - implemented
- sending jobs to a cluster (using SLURM, drmaa) - implemented
- identification via SAML2 - (not OpenID) - implementaiton phase now, 
problems with reading the response from IdP


If any of you has experience in pysaml2 + WSGI, please let me know. In 
turn, I am willing to share our experience so far with the issues above.


Best regards

Nikolay


On Sun, 29 Apr 2012 17:11:05 +1200, Edward Hills ehills...@gmail.com 
wrote:

Hi Ann,

We are in the process of doing the same thing here at the University
of Otago (New Zealand). If we are able to sort something via the
timezone difference (we are GMT+12, first to see the sun!) we would
very much be interested.

Cheers,
Ed

Hi everyone -


Here at the University of Iowa we are working on deploying Galaxy
locally for campus wide access.  I am interested in forming a 
community
of other institutions trying to deploy Galaxy locally and 
mange/operate

it on a broad level.  Is anyone else?   If there is enough interest,
possibly we could have  a community conference call every other 
month to

have an open discussion on how we are all deploying galaxy,
customizations we are making, problems we are encountering, bugs, 
and

any add-on operations management for galaxy being developed, etc.

Would love to hear from others operating Galaxy or in process of
standing up a local deployment.

Thanks!

Ann Black-Ziegelbein

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--
Nikolay Vazov, PhD
Research Computing Centre - http://hpc.uio.no
USIT, University of Oslo
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-29 Thread Nate Coraor
Hi Ryan,

I like that it's user-directed, and we could be there to provide input, 
although if help is needed to organize the call we could probably assist with 
that.  I plan to be on the call as often as my schedule allows, and I believe 
some of the other developers on the team would also be interested.

--nate

On Apr 28, 2012, at 8:49 AM, Ryan Golhar wrote:

 One question - Are the Galaxy developers involved in this or is this for 
 user's only?  It may be helpful to have developers on the call to provide 
 information that users do not necessarily have.
 
 On Fri, Apr 27, 2012 at 8:21 PM, steve.mcma...@csiro.au wrote:
 Sounds like a good idea to me.  I'm sure the time will be awkward due to the 
 time zone difference.  I'm at UTC+10.
 
 Regards.
 
 Steve McMahon
 Solutions architect  senior systems administrator
 ASC Cluster Services
 Information Management  Technology (IMT)
 CSIRO
 Phone: +61-2-62142968  |  Mobile:  +61-4-00779318
 steve.mcma...@csiro.au |  www.csiro.au
 PO Box 225, DICKSON  ACT  2602
 1 Wilf Crane Crescent, Yarralumla  ACT  2600
 
 -Original Message-
 From: galaxy-dev-boun...@lists.bx.psu.edu 
 [mailto:galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Ann Black-Ziegelbein
 Sent: Saturday, 28 April 2012 4:45 AM
 To: galaxy-dev@lists.bx.psu.edu
 Subject: [galaxy-dev] Interested in speaking with other institutions 
 deploying Galaxy locally?
 
 Hi everyone -
 
 Here at the University of Iowa we are working on deploying Galaxy
 locally for campus wide access.  I am interested in forming a community
 of other institutions trying to deploy Galaxy locally and mange/operate
 it on a broad level.  Is anyone else?   If there is enough interest,
 possibly we could have  a community conference call every other month to
 have an open discussion on how we are all deploying galaxy,
 customizations we are making, problems we are encountering, bugs, and
 any add-on operations management for galaxy being developed, etc.
 
 Would love to hear from others operating Galaxy or in process of
 standing up a local deployment.
 
 Thanks!
 
 Ann Black-Ziegelbein
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-29 Thread Fields, Christopher J
We've also started a local deployment for University of Illinois 
Urbana-Champaign.  So I would be interested in participating.

Chris

On Apr 27, 2012, at 2:32 PM, David Hoover hoove...@helix.nih.gov wrote:

 Not a bad idea.  Most of the conversations on this list are very limited and 
 detailed in scope, dealing with the minutia of tools and variables.  There 
 isn't much on the bird's eye view.  I'm in.
 
 On Apr 27, 2012, at 2:45 PM, Ann Black-Ziegelbein wrote:
 
 Hi everyone -
 
 Here at the University of Iowa we are working on deploying Galaxy locally 
 for campus wide access.  I am interested in forming a community of other 
 institutions trying to deploy Galaxy locally and mange/operate it on a broad 
 level.  Is anyone else?   If there is enough interest, possibly we could 
 have  a community conference call every other month to have an open 
 discussion on how we are all deploying galaxy, customizations we are making, 
 problems we are encountering, bugs, and any add-on operations management for 
 galaxy being developed, etc.
 
 Would love to hear from others operating Galaxy or in process of standing up 
 a local deployment.
 
 Thanks!
 
 Ann Black-Ziegelbein
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-29 Thread Dave Clements
Hi Ryan, Ann, and everyone else

I second what Nate says (I always do :-).  I too like that it is user
driven.  And, while I am not a developer, I do plan on being on the call as
often as possible.

I can also offer my support for logistical and any other support.  Ann,
please let me know if you want help with getting this going and getting the
word out.


On a related note,   With Matloob's email, we have at least 3
organizations in Australia and New Zealand that are interested. I know that
there are many more Galaxy installations in that part of the world (and you
have Enis and Ross in Australia now).  Would this be a good opportunity to
set up the first (to my knowledge) regional user group?  If anyone thinks
this is a good idea, please respond (and create a new thread).


Finally, Ann, thanks for starting this.

Dave C



I also  that both Ross and Enis are in Australia now



On Sun, Apr 29, 2012 at 10:24 AM, Nate Coraor n...@bx.psu.edu wrote:

 Hi Ryan,

 I like that it's user-directed, and we could be there to provide input,
 although if help is needed to organize the call we could probably assist
 with that.  I plan to be on the call as often as my schedule allows, and I
 believe some of the other developers on the team would also be interested.

 --nate

 On Apr 28, 2012, at 8:49 AM, Ryan Golhar wrote:

  One question - Are the Galaxy developers involved in this or is this for
 user's only?  It may be helpful to have developers on the call to provide
 information that users do not necessarily have.
 

-- 
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http://usegalaxy.org/
http://galaxyproject.org/wiki/
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-29 Thread Ross
To all interested in Dave's suggestion:

IMHO, an Australian/New Zealand Galaxy user/deployer/developer group
will be worth setting up and will be viable if it solves specific
problems that aren't adequately addressed by existing networks and
communication channels - otherwise it will be JAFUG (just another
fleeting user group) and will likely fizzle due to lack of genuine
utility to potential participants.

EG: One challenge for us when it comes to (eg) the proposed
teleconferences is the tyranny of time zones - being 14 hours ahead of
EST eg in Melbourne/Sydney. The other big challenge is that travel to
meetings in Europe or the USA is expensive and exhausting, so
workshops and hands on training are harder to get to. In general, I
think we're probably going to be able to find plenty of problems to do
with geographic isolation and maybe even some specific Australian
challenges - but let's be clear about exactly what those are before we
start building any structures. One problem I keep seeing is that there
are many organisations happy to invest in hardware infrastructure, but
far less willing to invest in the training and staff development
needed for success.

Two things I'd like to suggest to help with planning:

1) to get a better idea of scope, it would be very handy to assemble a
register of potential organisations and their primary contacts. I
already know of some large Australian organisations investing heavily
in Galaxy deployment - eg - VLSCI in Melbourne; UQ in Brisbane, CSIRO
all over the place, the Victorian DPI, AGRF, and the BakerIDI where
I'm based - no doubt there are plenty of others too?

2) to make sure the idea is viable, it would be useful to collect some
specific deployment challenges that people are experiencing that some
kind of local user's group could help overcome?

One focus I have a personal interest in exploring would be in face to
face educational activities: eg for local Galaxy instance system
administrators? Local tool developers? Local biologist users in
specific contexts like short read sequencing?

Suggestions welcomed...


On Mon, Apr 30, 2012 at 12:37 PM, Dave Clements
cleme...@galaxyproject.org wrote:
 Hi Ryan, Ann, and everyone else

 I second what Nate says (I always do :-).  I too like that it is user
 driven.  And, while I am not a developer, I do plan on being on the call as
 often as possible.

 I can also offer my support for logistical and any other support.  Ann,
 please let me know if you want help with getting this going and getting the
 word out.


 On a related note,   With Matloob's email, we have at least 3
 organizations in Australia and New Zealand that are interested. I know that
 there are many more Galaxy installations in that part of the world (and you
 have Enis and Ross in Australia now).  Would this be a good opportunity to
 set up the first (to my knowledge) regional user group?  If anyone thinks
 this is a good idea, please respond (and create a new thread).


 Finally, Ann, thanks for starting this.

 Dave C



 I also  that both Ross and Enis are in Australia now



 On Sun, Apr 29, 2012 at 10:24 AM, Nate Coraor n...@bx.psu.edu wrote:

 Hi Ryan,

 I like that it's user-directed, and we could be there to provide input,
 although if help is needed to organize the call we could probably assist
 with that.  I plan to be on the call as often as my schedule allows, and I
 believe some of the other developers on the team would also be interested.

 --nate

 On Apr 28, 2012, at 8:49 AM, Ryan Golhar wrote:

  One question - Are the Galaxy developers involved in this or is this for
  user's only?  It may be helpful to have developers on the call to provide
  information that users do not necessarily have.

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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-28 Thread Ryan Golhar
One question - Are the Galaxy developers involved in this or is this for
user's only?  It may be helpful to have developers on the call to provide
information that users do not necessarily have.

On Fri, Apr 27, 2012 at 8:21 PM, steve.mcma...@csiro.au wrote:

 Sounds like a good idea to me.  I'm sure the time will be awkward due to
 the time zone difference.  I'm at UTC+10.

 Regards.

 Steve McMahon
 Solutions architect  senior systems administrator
 ASC Cluster Services
 Information Management  Technology (IMT)
 CSIRO
 Phone: +61-2-62142968  |  Mobile:  +61-4-00779318
 steve.mcma...@csiro.au |  www.csiro.au
 PO Box 225, DICKSON  ACT  2602
 1 Wilf Crane Crescent, Yarralumla  ACT  2600

 -Original Message-
 From: galaxy-dev-boun...@lists.bx.psu.edu [mailto:
 galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Ann Black-Ziegelbein
 Sent: Saturday, 28 April 2012 4:45 AM
 To: galaxy-dev@lists.bx.psu.edu
 Subject: [galaxy-dev] Interested in speaking with other institutions
 deploying Galaxy locally?

 Hi everyone -

 Here at the University of Iowa we are working on deploying Galaxy
 locally for campus wide access.  I am interested in forming a community
 of other institutions trying to deploy Galaxy locally and mange/operate
 it on a broad level.  Is anyone else?   If there is enough interest,
 possibly we could have  a community conference call every other month to
 have an open discussion on how we are all deploying galaxy,
 customizations we are making, problems we are encountering, bugs, and
 any add-on operations management for galaxy being developed, etc.

 Would love to hear from others operating Galaxy or in process of
 standing up a local deployment.

 Thanks!

 Ann Black-Ziegelbein
 ___
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-28 Thread Edward Hills
Hi Ann,

We are in the process of doing the same thing here at the University
of Otago (New Zealand). If we are able to sort something via the
timezone difference (we are GMT+12, first to see the sun!) we would
very much be interested.

Cheers,
Ed

Hi everyone -

 Here at the University of Iowa we are working on deploying Galaxy
 locally for campus wide access.  I am interested in forming a community
 of other institutions trying to deploy Galaxy locally and mange/operate
 it on a broad level.  Is anyone else?   If there is enough interest,
 possibly we could have  a community conference call every other month to
 have an open discussion on how we are all deploying galaxy,
 customizations we are making, problems we are encountering, bugs, and
 any add-on operations management for galaxy being developed, etc.

 Would love to hear from others operating Galaxy or in process of
 standing up a local deployment.

 Thanks!

 Ann Black-Ziegelbein
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-27 Thread Ryan Golhar
This is a great idea.

On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
annbl...@eng.uiowa.edu wrote:

 Hi everyone -

 Here at the University of Iowa we are working on deploying Galaxy locally
 for campus wide access.  I am interested in forming a community of other
 institutions trying to deploy Galaxy locally and mange/operate it on a
 broad level.  Is anyone else?   If there is enough interest, possibly we
 could have  a community conference call every other month to have an open
 discussion on how we are all deploying galaxy, customizations we are
 making, problems we are encountering, bugs, and any add-on operations
 management for galaxy being developed, etc.

 Would love to hear from others operating Galaxy or in process of standing
 up a local deployment.

 Thanks!

 Ann Black-Ziegelbein
 __**_
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-27 Thread Nate Coraor
On Apr 27, 2012, at 3:14 PM, Ryan Golhar wrote:

 This is a great idea.

+1

 On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
 annbl...@eng.uiowa.edu wrote:
 Hi everyone -
 
 Here at the University of Iowa we are working on deploying Galaxy locally for 
 campus wide access.  I am interested in forming a community of other 
 institutions trying to deploy Galaxy locally and mange/operate it on a broad 
 level.  Is anyone else?   If there is enough interest, possibly we could have 
  a community conference call every other month to have an open discussion on 
 how we are all deploying galaxy, customizations we are making, problems we 
 are encountering, bugs, and any add-on operations management for galaxy being 
 developed, etc.
 
 Would love to hear from others operating Galaxy or in process of standing up 
 a local deployment.
 
 Thanks!
 
 Ann Black-Ziegelbein
 ___
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-27 Thread Langhorst, Brad
I'm interested

On Apr 27, 2012, at 3:14 PM, Ryan Golhar wrote:

This is a great idea.

On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
annbl...@eng.uiowa.edumailto:annbl...@eng.uiowa.edu wrote:
Hi everyone -

Here at the University of Iowa we are working on deploying Galaxy locally for 
campus wide access.  I am interested in forming a community of other 
institutions trying to deploy Galaxy locally and mange/operate it on a broad 
level.  Is anyone else?   If there is enough interest, possibly we could have  
a community conference call every other month to have an open discussion on how 
we are all deploying galaxy, customizations we are making, problems we are 
encountering, bugs, and any add-on operations management for galaxy being 
developed, etc.

Would love to hear from others operating Galaxy or in process of standing up a 
local deployment.

Thanks!

Ann Black-Ziegelbein
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978-380-7564




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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-27 Thread David Hoover
Not a bad idea.  Most of the conversations on this list are very limited and 
detailed in scope, dealing with the minutia of tools and variables.  There 
isn't much on the bird's eye view.  I'm in.

On Apr 27, 2012, at 2:45 PM, Ann Black-Ziegelbein wrote:

 Hi everyone -
 
 Here at the University of Iowa we are working on deploying Galaxy locally for 
 campus wide access.  I am interested in forming a community of other 
 institutions trying to deploy Galaxy locally and mange/operate it on a broad 
 level.  Is anyone else?   If there is enough interest, possibly we could have 
  a community conference call every other month to have an open discussion on 
 how we are all deploying galaxy, customizations we are making, problems we 
 are encountering, bugs, and any add-on operations management for galaxy being 
 developed, etc.
 
 Would love to hear from others operating Galaxy or in process of standing up 
 a local deployment.
 
 Thanks!
 
 Ann Black-Ziegelbein
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-27 Thread Mohammad Heydarian
Great idea. In!

Cheers,
Mo Heydarian

PhD candidate
The Johns Hopkins School of Medicine
Department of Biological Chemistry
725 Wolfe Street
414 Hunterian
Baltimore, MD 21205



On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
annbl...@eng.uiowa.edu wrote:

 Hi everyone -

 Here at the University of Iowa we are working on deploying Galaxy locally
 for campus wide access.  I am interested in forming a community of other
 institutions trying to deploy Galaxy locally and mange/operate it on a
 broad level.  Is anyone else?   If there is enough interest, possibly we
 could have  a community conference call every other month to have an open
 discussion on how we are all deploying galaxy, customizations we are
 making, problems we are encountering, bugs, and any add-on operations
 management for galaxy being developed, etc.

 Would love to hear from others operating Galaxy or in process of standing
 up a local deployment.

 Thanks!

 Ann Black-Ziegelbein
 __**_
 Please keep all replies on the list by using reply all
 in your mail client.  To manage your subscriptions to this
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  http://lists.bx.psu.edu/



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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-27 Thread JIE CHEN
Cool idea. I am very interested in it. One question: how could we attend
the conference since we all at different place?

Cheers,
Tyler

On Fri, Apr 27, 2012 at 12:33 PM, Mohammad Heydarian mheyd...@jhmi.eduwrote:

 Great idea. In!

 Cheers,
 Mo Heydarian

 PhD candidate
 The Johns Hopkins School of Medicine
 Department of Biological Chemistry
 725 Wolfe Street
 414 Hunterian
 Baltimore, MD 21205



 On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
 annbl...@eng.uiowa.edu wrote:

 Hi everyone -

 Here at the University of Iowa we are working on deploying Galaxy locally
 for campus wide access.  I am interested in forming a community of other
 institutions trying to deploy Galaxy locally and mange/operate it on a
 broad level.  Is anyone else?   If there is enough interest, possibly we
 could have  a community conference call every other month to have an open
 discussion on how we are all deploying galaxy, customizations we are
 making, problems we are encountering, bugs, and any add-on operations
 management for galaxy being developed, etc.

 Would love to hear from others operating Galaxy or in process of standing
 up a local deployment.

 Thanks!

 Ann Black-Ziegelbein
 __**_
 Please keep all replies on the list by using reply all
 in your mail client.  To manage your subscriptions to this
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-27 Thread Ann Black-Ziegelbein
Thanks everyone! Glad to find some common interest.  I will see if I can 
arrange an initial call.


Hi Tyler - I was hoping we could just do a voice conference call.  It 
would be great to meet those face to face at the Galaxy Conference in 
Chicago if some are attending.


Thanks!

Ann

On 4/27/2012 3:07 PM, JIE CHEN wrote:
Cool idea. I am very interested in it. One question: how could we 
attend the conference since we all at different place?


Cheers,
Tyler

On Fri, Apr 27, 2012 at 12:33 PM, Mohammad Heydarian 
mheyd...@jhmi.edu mailto:mheyd...@jhmi.edu wrote:


Great idea. In!

Cheers,
Mo Heydarian

PhD candidate
The Johns Hopkins School of Medicine
Department of Biological Chemistry
725 Wolfe Street
414 Hunterian
Baltimore, MD 21205



On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein
annbl...@eng.uiowa.edu mailto:annbl...@eng.uiowa.edu wrote:

Hi everyone -

Here at the University of Iowa we are working on deploying
Galaxy locally for campus wide access.  I am interested in
forming a community of other institutions trying to deploy
Galaxy locally and mange/operate it on a broad level.  Is
anyone else?   If there is enough interest, possibly we could
have  a community conference call every other month to have an
open discussion on how we are all deploying galaxy,
customizations we are making, problems we are encountering,
bugs, and any add-on operations management for galaxy being
developed, etc.

Would love to hear from others operating Galaxy or in process
of standing up a local deployment.

Thanks!

Ann Black-Ziegelbein
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-27 Thread Anne Pajon
I'm interested too.
 
On 27 Apr 2012, at 21:13, Ann Black-Ziegelbein wrote:

 Thanks everyone! Glad to find some common interest.  I will see if I can 
 arrange an initial call. 
 
 Hi Tyler - I was hoping we could just do a voice conference call.  It would 
 be great to meet those face to face at the Galaxy Conference in Chicago if 
 some are attending. 
 
 Thanks!
 
 Ann
 
 On 4/27/2012 3:07 PM, JIE CHEN wrote:
 Cool idea. I am very interested in it. One question: how could we attend the 
 conference since we all at different place? 
 
 Cheers,
 Tyler
 
 On Fri, Apr 27, 2012 at 12:33 PM, Mohammad Heydarian mheyd...@jhmi.edu 
 wrote:
 Great idea. In!
 
 Cheers, 
 Mo Heydarian
 
 PhD candidate 
 The Johns Hopkins School of Medicine
 Department of Biological Chemistry 
 725 Wolfe Street
 414 Hunterian 
 Baltimore, MD 21205
 
 
 
 On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
 annbl...@eng.uiowa.edu wrote:
 Hi everyone -
 
 Here at the University of Iowa we are working on deploying Galaxy locally 
 for campus wide access.  I am interested in forming a community of other 
 institutions trying to deploy Galaxy locally and mange/operate it on a broad 
 level.  Is anyone else?   If there is enough interest, possibly we could 
 have  a community conference call every other month to have an open 
 discussion on how we are all deploying galaxy, customizations we are making, 
 problems we are encountering, bugs, and any add-on operations management for 
 galaxy being developed, etc.
 
 Would love to hear from others operating Galaxy or in process of standing up 
 a local deployment.
 
 Thanks!
 
 Ann Black-Ziegelbein
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--
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anne.pa...@cancer.org.uk | +44 (0)7958 511 353


NOTICE AND DISCLAIMER
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-27 Thread Cittaro Davide
Here's another interested!

On Apr 27, 2012, at 8:45 PM, Ann Black-Ziegelbein wrote:

Hi everyone -

Here at the University of Iowa we are working on deploying Galaxy
locally for campus wide access.  I am interested in forming a community
of other institutions trying to deploy Galaxy locally and mange/operate
it on a broad level.  Is anyone else?   If there is enough interest,
possibly we could have  a community conference call every other month to
have an open discussion on how we are all deploying galaxy,
customizations we are making, problems we are encountering, bugs, and
any add-on operations management for galaxy being developed, etc.

Would love to hear from others operating Galaxy or in process of
standing up a local deployment.

Thanks!

Ann Black-Ziegelbein
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Via Olgettina 58
20132 Milano
Italy

Office: +39 02 26439140
Mail: cittaro.dav...@hsr.itmailto:cittaro.dav...@hsr.it
Skype: daweonline
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Re: [galaxy-dev] Interested in speaking with other institutions deploying Galaxy locally?

2012-04-27 Thread Shantanu Pavgi

We are interested too. Thanks Ann for taking the initiative. 

--
Shantanu


On Apr 27, 2012, at 3:38 PM, Anne Pajon wrote:

 I'm interested too.
 
 On 27 Apr 2012, at 21:13, Ann Black-Ziegelbein wrote:
 
 Thanks everyone! Glad to find some common interest.  I will see if I can 
 arrange an initial call. 
 
 Hi Tyler - I was hoping we could just do a voice conference call.  It would 
 be great to meet those face to face at the Galaxy Conference in Chicago if 
 some are attending. 
 
 Thanks!
 
 Ann
 
 On 4/27/2012 3:07 PM, JIE CHEN wrote:
 Cool idea. I am very interested in it. One question: how could we attend 
 the conference since we all at different place? 
 
 Cheers,
 Tyler
 
 On Fri, Apr 27, 2012 at 12:33 PM, Mohammad Heydarian mheyd...@jhmi.edu 
 wrote:
 Great idea. In!
 
 Cheers, 
 Mo Heydarian
 
 PhD candidate 
 The Johns Hopkins School of Medicine
 Department of Biological Chemistry 
 725 Wolfe Street
 414 Hunterian 
 Baltimore, MD 21205
 
 
 
 On Fri, Apr 27, 2012 at 2:45 PM, Ann Black-Ziegelbein 
 annbl...@eng.uiowa.edu wrote:
 Hi everyone -
 
 Here at the University of Iowa we are working on deploying Galaxy locally 
 for campus wide access.  I am interested in forming a community of other 
 institutions trying to deploy Galaxy locally and mange/operate it on a 
 broad level.  Is anyone else?   If there is enough interest, possibly we 
 could have  a community conference call every other month to have an open 
 discussion on how we are all deploying galaxy, customizations we are 
 making, problems we are encountering, bugs, and any add-on operations 
 management for galaxy being developed, etc.
 
 Would love to hear from others operating Galaxy or in process of standing 
 up a local deployment.
 
 Thanks!
 
 Ann Black-Ziegelbein
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 --
 Anne Pajon, Ph.D.
 Cancer Research UK - Cambridge Research Institute
 Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE
 anne.pa...@cancer.org.uk | +44 (0)7958 511 353
 
 
 NOTICE AND DISCLAIMER
 This e-mail (including any attachments) is intended for the above-named 
 person(s). If you are not the intended recipient, notify the sender 
 immediately, delete this email from your system and do not disclose or use 
 for any purpose. 
 
 We may monitor all incoming and outgoing emails in line with current 
 legislation. We have taken steps to ensure that this email and attachments 
 are free from any virus, but it remains your responsibility to ensure that 
 viruses do not adversely affect you. 
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 Company Registered Number: 4325234.
 Registered Charity Number: 1089464 and Scotland SC041666
 Registered Office Address: Angel Building, 407 St John Street, London EC1V 
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