Forum: JRuby Lost connection to MySQL server during query

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Brendan Grainger (Guest)
on 2009-04-14 20:13
(Received via mailing list)
Hi,

I'm trying to run an existing rails app on jruby. When I run:

jruby -S rake db:test:clone

I get the following stacktrace. Right now we're using rails 1.2.3, but
I tried this with rails 1.2.6 and 2.0.2:

rake aborted!
Mysql::Error: Lost connection to MySQL server during query: SHOW TABLES
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/activerecord-1.15.3/lib/
active_record/connection_adapters/abstract_adapter.rb:128:in `log'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/activerecord-1.15.3/lib/
active_record/connection_adapters/mysql_adapter.rb:243:in `execute'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/activerecord-1.15.3/lib/
active_record/connection_adapters/mysql_adapter.rb:326:in `tables'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/activerecord-1.15.3/lib/
active_record/schema_dumper.rb:54:in `tables'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/activerecord-1.15.3/lib/
active_record/schema_dumper.rb:23:in `dump'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/activerecord-1.15.3/lib/
active_record/schema_dumper.rb:17:in `dump'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rails-1.2.3/lib/tasks/
databases.rake:24
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rails-1.2.3/lib/tasks/
databases.rake:23:in `open'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rails-1.2.3/lib/tasks/
databases.rake:23
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
617:in `call'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
617:in `execute'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
612:in `each'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
612:in `execute'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
578:in `invoke_with_call_chain'
/usr/local/jruby/lib/ruby/1.8/monitor.rb:191:in `mon_synchronize'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
571:in `invoke_with_call_chain'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
588:in `invoke_prerequisites'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
585:in `each'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
585:in `invoke_prerequisites'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
577:in `invoke_with_call_chain'
/usr/local/jruby/lib/ruby/1.8/monitor.rb:191:in `mon_synchronize'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
571:in `invoke_with_call_chain'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
564:in `invoke'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
2027:in `invoke_task'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
2005:in `top_level'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
2005:in `each'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
2005:in `top_level'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
2044:in `standard_exception_handling'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
1999:in `top_level'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
1977:in `run'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
2044:in `standard_exception_handling'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
1974:in `run'
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/bin/rake:31
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/bin/rake:
19:in `load'
/usr/local/jruby/bin/rake:19


Here are the gems I have installed:

actionmailer (2.3.2, 2.0.2, 1.3.6, 1.3.3)
actionpack (2.3.2, 2.0.2, 1.13.6, 1.13.3)
actionwebservice (1.2.6, 1.2.3)
activerecord (2.3.2, 2.0.2, 2.0.1, 1.15.6, 1.15.3)
ActiveRecord-JDBC (0.5)
activerecord-jdbc-adapter (0.9.1)
activerecord-jdbcmysql-adapter (0.9.1)
activeresource (2.3.2, 2.0.2)
activesupport (2.3.2, 2.0.2, 2.0.1, 1.4.4, 1.4.2)
archive-tar-minitar (0.5.2)
color (1.4.0)
fastercsv (1.2.3)
gem_plugin (0.2.3)
hoe (1.12.1)
hpricot (0.6.164)
htmltools (1.10)
jdbc-mysql (5.0.4)
jruby-openssl (0.4)
macaddr (1.0.0)
mocha (0.9.5)
mongrel (1.1.5)
pdf-writer (1.1.8)
rails (2.3.2, 2.0.2, 1.2.6, 1.2.3)
rake (0.8.4)
rspec (1.2.0)
rubyforge (1.0.3)
rubyful_soup (1.0.4)
ruport (1.6.1)
sources (0.0.1)
transaction-simple (1.4.0)
uuid (2.0.1)


Any help?

Thanks
Brendan

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Brendan Grainger (Guest)
on 2009-04-14 20:31
(Received via mailing list)
Hi,

Sorry I forgot to mention. I am running OSX and have added:

if RUBY_PLATFORM =~ /java/
   require 'rubygems'
   gem 'activerecord-jdbc-adapter'
   require 'jdbc_adapter'
end

to environment.rb as explained in:

http://github.com/nicksieger/activerecord-jdbc-ada...

Thanks again

On Apr 14, 2009, at 11:46 AM, Brendan Grainger wrote:

> Mysql::Error: Lost connection to MySQL server during query: SHOW
> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/activerecord-1.15.3/
> 617:in `call'
> 571:in `invoke_with_call_chain'
> 571:in `invoke_with_call_chain'
> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:
> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/bin/rake:
> ActiveRecord-JDBC (0.5)
> htmltools (1.10)
> rubyful_soup (1.0.4)
> ruport (1.6.1)
> sources (0.0.1)
> transaction-simple (1.4.0)
> uuid (2.0.1)
>
>
> Any help?
>
> Thanks
> Brendan


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Brendan Grainger (Guest)
on 2009-04-15 20:20
(Received via mailing list)
Don't suppose anyone has had a similar experience with OSX?

Thanks

On Apr 14, 2009, at 12:30 PM, Brendan Grainger wrote:

> to environment.rb as explained in:
>>
>> `log'
>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/activerecord-1.15.3/
>> rake.rb:617:in `execute'
>> rake.rb:588:in `invoke_prerequisites'
>> rake.rb:564:in `invoke'
>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/
>> /usr/local/jruby/bin/rake:19
>> activerecord-jdbcmysql-adapter (0.9.1)
>> jruby-openssl (0.4)
>> sources (0.0.1)
>> transaction-simple (1.4.0)
>> uuid (2.0.1)
>>
>>
>> Any help?
>>
>> Thanks
>> Brendan
>


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AD (Guest)
on 2009-04-15 22:00
(Received via mailing list)
does this happen for every query or just intermittently?

We had some issues with connections being lost so we had to implement
DBCP in Tomcat to handle proper connection pooling in case a
connection died.

Adam

On Wed, Apr 15, 2009 at 12:19 PM, Brendan Grainger
<removed_email_address@domain.invalid> wrote:
>> if RUBY_PLATFORM =~ /java/
>>
>>>
>>> `tables'
>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rails-1.2.3/lib/tasks/databases.rake:24
>>> `execute'
>>>
>>> `invoke_prerequisites'
>>>
>>> `top_level'
>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:2044:in
>>> Here are the gems I have installed:
>>> archive-tar-minitar (0.5.2)
>>> mongrel (1.1.5)
>>>
>
>   http://xircles.codehaus.org/manage_email
>
>
>

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Brendan Grainger (Guest)
on 2009-04-15 22:09
(Received via mailing list)
This happens always, when I run:

jrake db:migrate

Usually when trying to create an index.

Thanks!

On Apr 15, 2009, at 1:59 PM, AD wrote:

>> Don't suppose anyone has had a similar experience with OSX?
>>>  require 'rubygems'
>>> On Apr 14, 2009, at 11:46 AM, Brendan Grainger wrote:
>>>>
>>>> `execute'
>>>> lib/active_record/schema_dumper.rb:23:in
>>>> tasks/databases.rake:23:in
>>>> rake.rb:617:in
>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/
>>>> `invoke_prerequisites'
>>>> rake.rb:577:in
>>>>
>>>> `each'
>>>> rake.rb:1999:in
>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/
>>>> Here are the gems I have installed:
>>>> archive-tar-minitar (0.5.2)
>>>> mongrel (1.1.5)
>>>>
>>
>
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AD (Guest)
on 2009-04-15 22:55
(Received via mailing list)
can you connect to mysql from the server outside of Jruby ?  Can you
confirm the credentials are correct in database.yml ?

Are you using activerecord-jdbc ?

On Wed, Apr 15, 2009 at 2:08 PM, Brendan Grainger
<removed_email_address@domain.invalid> wrote:
>> does this happen for every query or just intermittently?
>>> Don't suppose anyone has had a similar experience with OSX?
>>>>  require 'rubygems'
>>>> On Apr 14, 2009, at 11:46 AM, Brendan Grainger wrote:
>>>>>
>>>>>
>>>>> `dump'
>>>>> `open'
>>>>> `execute'
>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:578:in
>>>>>
>>>>> `invoke_with_call_chain'
>>>>>
>>>>>
>>>>> `top_level'
>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:1974:in
>>>>> actionpack (2.3.2, 2.0.2, 1.13.6, 1.13.3)
>>>>> gem_plugin (0.2.3)
>>>>> rake (0.8.4)
>>>>>
>>>
> ---------------------------------------------------------------------
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>
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>
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Brendan Grainger (Guest)
on 2009-04-15 23:58
(Received via mailing list)
Answers below:

On Apr 15, 2009, at 2:55 PM, AD wrote:

> can you connect to mysql from the server outside of Jruby ?
Yes. In fact I can run the application no problem using the same
configuration. It seems only to lose the connection when doing ddl
type things like: jrake db:migrate, jrake db:test:clone or running
tests (jrake test).

> Can you confirm the credentials are correct in database.yml ?
Yes. They work fine if I start up using MRI.

> Are you using activerecord-jdbc ?
Yes. Here is the relevant output of jgem list :

activerecord-jdbc-adapter (0.9.1)
activerecord-jdbcmysql-adapter (0.9.1)

I have the following in my environment.rb

# Only needed for rails 1.2.x
if RUBY_PLATFORM =~ /java/
   puts
"**************************************************************************\n
"
   puts " Running jdbc adapter "
   puts
"**************************************************************************\n
"
   require 'rubygems'
   gem 'activerecord-jdbc-adapter'
   require 'jdbc_adapter'
end

Thanks again
Brendan

>> Thanks!
>>> Adam
>>>>> Hi,
>>>>>
>>>>>> jruby -S rake db:test:clone
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> tasks/databases.rake:23
>>>>>>
>>>>>>
>>>>>>
>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/
>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/
>>>>>> rake.rb:2027:in
>>>>>> `each'
>>>>>>
>>>>>>
>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/bin/
>>>>>> activerecord (2.3.2, 2.0.2, 2.0.1, 1.15.6, 1.15.3)
>>>>>> hpricot (0.6.164)
>>>>>> rubyforge (1.0.3)
>>>>>> Brendan
>>>
>>
>
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AD (Guest)
on 2009-04-16 01:32
(Received via mailing list)
can you show me a copy of your database.yml ?

rake db:migrate by default tries to read the "development" section.
Make sure you either tell db:migrate to use prod or update your
development section of database.yml.

On Wed, Apr 15, 2009 at 3:57 PM, Brendan Grainger
<removed_email_address@domain.invalid> wrote:
>
>
>  gem 'activerecord-jdbc-adapter'
>>>
>>>> does this happen for every query or just intermittently?
>>>>> Don't suppose anyone has had a similar experience with OSX?
>>>>>>  require 'rubygems'
>>>>>> On Apr 14, 2009, at 11:46 AM, Brendan Grainger wrote:
>>>>>>> tried this with rails 1.2.6 and 2.0.2:
>>>>>>>
>>>>>>>
>>>>>>> 
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/activerecord-1.15.3/lib/active_record/schema_dumper.rb:17:in
>>>>>>>
>>>>>>>
>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:612:in
>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:571:in
>>>>>>> `each'
>>>>>>> /usr/local/jruby/lib/ruby/1.8/monitor.rb:191:in `mon_synchronize'
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:1977:in
>>>>>>> `run'
>>>>>>> actionpack (2.3.2, 2.0.2, 1.13.6, 1.13.3)
>>>>>>> gem_plugin (0.2.3)
>>>>>>> rake (0.8.4)
>>>>>>>
>>>>>
>>> ---------------------------------------------------------------------
>>   http://xircles.codehaus.org/manage_email
>
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Brendan Grainger (Guest)
on 2009-04-16 01:44
(Received via mailing list)
Here it is. Note that running under MRI everything works fine.
--------------------------------------------------------------------------------
defaults: &defaults
   username: blog
   password: blog
   host: localhost
   adapter: mysql
   socket: /var/run/mysqld/mysql.sock # I know this is weird, it's not
my fault
   # When we use rails > 2.0 adapter: jdbcmysql


development:
   database: blog_development
   <<: *defaults

test:
   database: blog_test
   <<: *defaults

--------------------------------------------------------------------------------

I know rake db:migrate tries to read the development section by default.

Thanks

On Apr 15, 2009, at 5:31 PM, AD wrote:

>> On Apr 15, 2009, at 2:55 PM, AD wrote:
>>> Can you confirm the credentials are correct in database.yml ?
>> I have the following in my environment.rb
>>  require 'rubygems'
>>> <removed_email_address@domain.invalid> wrote:
>>>>
>>>>> <removed_email_address@domain.invalid> wrote:
>>>>>>>
>>>>>>> Thanks again
>>>>>>>> 1.2.3,
>>>>>>>>
>>>>>>>> `execute'
>>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/
>>>>>>>>
>>>>>>>>
>>>>>>>> rake.rb:571:in
>>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> `standard_exception_handling'
>>>>>>>> rake:19:in
>>>>>>>> ActiveRecord-JDBC (0.5)
>>>>>>>> htmltools (1.10)
>>>>>>>> rubyful_soup (1.0.4)
>>>>>>>
>>>>> ---------------------------------------------------------------------
>>>>  http://xircles.codehaus.org/manage_email
>>
> To unsubscribe from this list, please visit:
>
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AD (Guest)
on 2009-04-16 04:43
(Received via mailing list)
can you run it with --trace do see if you get any additional info ?

On Wed, Apr 15, 2009 at 5:43 PM, Brendan Grainger
<removed_email_address@domain.invalid> wrote:
>
>
>> development section of database.yml.
>>> Yes. In fact I can run the application no problem using the same
>>>
>>>
>>> Thanks again
>>>>>
>>>>>> connection died.
>>>>>>> On Apr 14, 2009, at 12:30 PM, Brendan Grainger wrote:
>>>>>>>>
>>>>>>>>> I'm trying to run an existing rails app on jruby. When I run:
>>>>>>>>> TABLES
>>>>>>>>> 
/usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/activerecord-1.15.3/lib/active_record/connection_adapters/mysql_adapter.rb:243:in
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:571:in
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> `invoke_task'
>>>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/lib/rake.rb:2005:in
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> /usr/local/jruby/bin/rake:19
>>>>>>>>> activerecord-jdbcmysql-adapter (0.9.1)
>>>>>>>>> jruby-openssl (0.4)
>>>>>>>>> sources (0.0.1)
>>>>>>>
>>>>>>
>>>>>
>>> ---------------------------------------------------------------------
>>   http://xircles.codehaus.org/manage_email
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Brendan Grainger (Guest)
on 2009-04-16 18:39
(Received via mailing list)
Hi,

Thanks, but if you look at my first post that's exactly what I did.

Anyway, I seem to have figured it out (cross fingers). I made the
following changes to my.cnf:

# InnoDB Settings
innodb_buffer_pool_size = 128M
innodb_additional_mem_pool_size = 20M

and bingo! No more lost connections. I tried these settings with both
the disk image from mysql.com (version 5.1.33) and the macports
version (version 5.0.75) . Both were failing to db:migrate previously
on Leopard. Both seem to work now.

Thanks all
Brendan

On Apr 15, 2009, at 8:43 PM, AD wrote:

>>  adapter: mysql
>> test:
>> On Apr 15, 2009, at 5:31 PM, AD wrote:
>>>> Answers below:
>>>> test).
>>>> activerecord-jdbcmysql-adapter (0.9.1)
>>>>  puts
>>>>
>>>>>>
>>>>>>>
>>>>>>>>
>>>>>>>>> to environment.rb as explained in:
>>>>>>>>>>
>>>>>>>>>> SHOW
>>>>>>>>>>
>>>>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/
>>>>>>>>>>
>>>>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/
>>>>>>>>>>
>>>>>>>>>> lib/rake.rb:578:in
>>>>>>>>>>
>>>>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> /usr/local/jruby-1.2.0/lib/ruby/gems/1.8/gems/rake-0.8.4/
>>>>>>>>>>
>>>>>>>>>> lib/rake.rb:2044:in
>>>>>>>>>>
>>>>>>>>>> `standard_exception_handling'
>>>>>>>>>>
>>>>>>>>>> actionpack (2.3.2, 2.0.2, 1.13.6, 1.13.3)
>>>>>>>>>> gem_plugin (0.2.3)
>>>>>>>>>> rake (0.8.4)
>>>>>>>>>>
>>>>>>>>
>>>>>> ---------------------------------------------------------------------
>>>>>  http://xircles.codehaus.org/manage_email
>>>>
>> To unsubscribe from this list, please visit:
>
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