Difference between revisions of "GMOD Mailing Lists"

From GMOD
Jump to: navigation, search
(Moved 7 component's lists from active to inactive)
 
(102 intermediate revisions by 6 users not shown)
Line 1: Line 1:
This table is current as of November 2006, it contains most of the mailing lists relevant
+
{{TocRight}}
 
+
 
+
 
+
  
 +
This page lists most of the mailing lists relevant to GMOD.  The default location for GMOD related lists is [http://sourceforge.net/mail/?group_id=27707 SourceForge], but lists are actually implemented on various servers all over the world.
  
 +
The lists are broken into several categories:
 +
* [[#Overview Lists|Overview Lists]]
 +
* [[#Component Lists|Component Lists]]
 +
* [[#Topic Based Lists|Topic Based Lists]]
 +
* [[#Inactive Lists|Inactive Lists]]
  
 +
We also include pointers to [[#A Few Non GMOD Lists|a few non GMOD lists]] that are of general interest.
  
  
 +
== Searching Email Lists ==
  
 +
{|
 +
| align="center" | [[File:NAbbleNLogo.jpg|center|link=http://gmod.827538.n3.nabble.com/|GMOD Archive at Nabble]]<span class="plainlinks">[http://gmod.827538.n3.nabble.com/ Search<br />Archive]</span>
 +
| bgcolor="#dddddd" | &nbsp;
 +
|
 +
| GMOD's default mailing list server is Sourceforge.  Sourceforge, however, has a notoriously hard to use mail archive search facility.  Therefore, we try to archive mailing lists on sites that have friendlier search facilites, such as [http://gmod.827538.n3.nabble.com/ Nabble], [http://gmane.org Gmane.org], and [http://groups.google.com Google groups].  The tables below link to these archives, whenever they exist.
 +
|}
  
 +
== Posting to and Membership in Email Lists ==
  
 +
Most GMOD lists require you to be a member of the list to post to the list.  If you aren't a member, your post will be ''deferred'' until one of that list's managers has a chance to review your posting.  Therefore, ''we strongly suggest that join a list before posting to it.''
  
 +
== Overview Lists ==
  
 +
{| class="wikitable"
 +
!Topic
 +
!List Link
 +
!Comment
 +
! Archive(s)
 +
|-
 +
! Announcements
 +
|[https://lists.sourceforge.net/lists/listinfo/gmod-announce gmod-announce]
 +
|Low volume GMOD announcements.  Moderated.
 +
| [http://dir.gmane.org/gmane.science.biology.gmod.announce Gmane], [http://gmod.827538.n3.nabble.com/Announcements-f815515.html Nabble] (2010/05+), [http://sourceforge.net/mailarchive/forum.php?forum_name=gmod-announce Sourceforge]
 +
|-
 +
! GMOD Developers List
 +
| [https://lists.sourceforge.net/lists/listinfo/gmod-devel gmod-devel]
 +
| General GMOD developer list.
 +
| [http://dir.gmane.org/gmane.science.biology.gmod.devel Gmane], [http://gmod.827538.n3.nabble.com/Developers-f815538.html Nabble] (2010/05+), [http://sourceforge.net/mailarchive/forum.php?forum_name=gmod-devel Sourceforge]
 +
|-
 +
|}
  
 +
== Component Lists ==
  
 +
Mailing lists about specific [[GMOD Components]].
  
 +
{| class="wikitable"
 +
! Component
 +
! Subscribe Link
 +
! Comment
 +
! Archive(s)
 +
{{MailingListsApollo}}
 +
|-
 +
{{MailingListsBioMart}}
 +
{{MailingListsChado}}
 +
{{MailingListsGalaxy}}
 +
{{MailingListsGBrowse}}
 +
{{MailingListsInterMine}}
 +
{{MailingListsJBrowse}}
 +
{{MailingListsMAKER}}
 +
{{MailingListsPathway Tools}}
 +
|-
 +
! [[Sybil]]
 +
| [https://lists.sourceforge.net/lists/listinfo/sybil-info sybil-info]
 +
| [[Sybil]] mailing list.
 +
| [http://sourceforge.net/mailarchive/forum.php?forum_name=sybil-info Sourceforge]
 +
{{MailingListsTextpresso}}
 +
{{MailingListsTripal}}
 +
|}
  
 +
== Topic Based Lists ==
  
 +
These mailing lists are about general topics of interest, rather than about specific software components.
  
 +
{| class="wikitable"
 +
! Name
 +
! List Link
 +
! Topics
 +
! Archive(s)
 +
{{MailingListsCoGePhy}}
 +
{{MailingListsPhenDiver}}
 +
|}
  
 +
== Inactive Lists ==
  
 +
=== As of May 2016 ===
  
 +
As of May 2016, these lists have not had postings in the past 12 months.
  
 +
{| class="wikitable"
 +
! Component
 +
! Subscribe Link
 +
! Comment
 +
! Archive(s)
 +
|-
 +
! {{CPAN|Bio::Graphics}}
 +
| [https://lists.sourceforge.net/lists/listinfo/gmod-biographics-commits gmod-biographics-commits]
 +
| {{CPAN|Bio::Graphics}} code updates.
 +
| [http://sourceforge.net/mailarchive/forum.php?forum_name=gmod-biographics-commits Sourceforge]
 +
{{MailingListsCMap}}
 +
{{MailingListsDIYA}}
 +
{{MailingListsErgatis}}
 +
{{MailingListsISGA}}
 +
{{MailingListsModware}}
 +
{{MailingListsWebGBrowse}}
 +
|}
  
to GMOD. This table does not contain the more technical lists that automatically deliver every change or ''commit'' to the GMOD CVS repositories, see http://sourceforge.net/mail/?group_id=27707 for these mailing lists.
+
=== As of August 2008 ===
[http://www.nabble.com/Generic-Model-Organism-System-Database-f3491.html Nabble has a GMOD mail mirror] of these lists, which helps as the SourceForge mail services, especially searches, are (often) unavailable.
+
As of August 2008, these lists have not had postings in the past 12 months.
  
{| border="1" cellspacing="0"
+
{| class="wikitable"
!Name
+
! List
!URL
+
! Comment
!Comment
+
 
|-
 
|-
|gmod-devel
+
|[https://lists.sourceforge.net/lists/listinfo/gmod-architecture gmod-architecture]
|https://lists.sourceforge.net/lists/listinfo/gmod-devel
+
|GMOD architecture working group list.  <!-- Very low traffic.  [http://sourceforge.net/mailarchive/forum.php?forum_name=gmod-architecture Sourceforge] -->
|
+
 
|-
 
|-
|gmod-schema
+
| [https://lists.sourceforge.net/lists/listinfo/gmod-chado-seq-ad gmod-chado-seq-ad]
|https://lists.sourceforge.net/lists/listinfo/gmod-schema
+
| Last post November 2006.
|All Chado issues
+
 
|-
 
|-
|gmod-announce
+
| [https://lists.sourceforge.net/lists/listinfo/gmod-citrina gmod-citrina]
|https://lists.sourceforge.net/lists/listinfo/gmod-announce
+
| [[Citrina]] mailing list.  Last post June 2006.  Citrina is [[:Category:Unsupported|no longer supported]] by GMOD.
|
+
 
|-
 
|-
|gmod-architecture
+
| [https://lists.sourceforge.net/lists/listinfo/gmod-cmae gmod-cmae]
|https://lists.sourceforge.net/lists/listinfo/gmod-architecture
+
| [[CMAE]] mailing list.  Last post July 2007.
|
+
 
|-
 
|-
|gmod-chado-seq-ad
+
| [https://lists.sourceforge.net/lists/listinfo/gmod-das2-cmts gmod-das2-cmts]
|https://lists.sourceforge.net/lists/listinfo/gmod-chado-seq-ad
+
| [[Distributed Annotation System]] mailing list.  Last commit June 2007.
|
+
 
|-
 
|-
|gmod-citrina
+
| [https://lists.sourceforge.net/lists/listinfo/gmod-gene-page gmod-gene-page]
|https://lists.sourceforge.net/lists/listinfo/gmod-citrina
+
| Last post December 2005.  ''This topic was restarted at the [[July 2008 GMOD Meeting]] and the discussion is now happening on the [https://lists.sourceforge.net/lists/listinfo/gmod-devel gmod-devel] list.''  So, the list is dead, but not the topic.
|[[Citrina]] mailing list
+
 
|-
 
|-
|gmod-cmap
+
| [https://lists.sourceforge.net/lists/listinfo/gmod-ontol-sw-dev gmod-ontol-sw-dev]
|https://lists.sourceforge.net/lists/listinfo/gmod-cmap
+
| Coordination of software and architecture for ontologies.
|[[CMap]] mailing list
+
 
|-
 
|-
|gmod-gbrowse
+
| [https://lists.sourceforge.net/lists/listinfo/gmod-pubsearch-dv gmod-pubsearch-dv]
|https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
+
| [[PubSearch]] mailing list.
|[[GBrowse]] mailing list
+
 
|-
 
|-
|gmod-gene-page
+
| |[https://lists.sourceforge.net/lists/listinfo/gmod-resources gmod-resources]
|https://lists.sourceforge.net/lists/listinfo/gmod-gene-page
+
| Last post July 2005.
|
+
 
|-
 
|-
|gmod-ontol-sw-dev
+
| [https://lists.sourceforge.net/lists/listinfo/gmod-web-cmts gmod-web-cmts]
|https://lists.sourceforge.net/lists/listinfo/gmod-ontol-sw-dev
+
| Last post December 2004.
|
+
 
|-
 
|-
|gmod-pubsearch-dv
+
| [https://lists.sourceforge.net/lists/listinfo/turnkey-users turnkey-users]
|https://lists.sourceforge.net/lists/listinfo/gmod-pubsearch-dv
+
| [[Turnkey]] user list. Last post 2008.
|
+
 
|-
 
|-
|gmod-resources
+
| [https://lists.sourceforge.net/lists/listinfo/turnkey-devel turnkey-devel]
|https://lists.sourceforge.net/lists/listinfo/gmod-resources
+
| [[Turnkey]] development list.  Last post 2008.
|
+
 
|-
 
|-
|gmod-web-cmts
+
| [https://lists.sourceforge.net/lists/listinfo/turnkey-cmts turnkey-cmts]
|https://lists.sourceforge.net/lists/listinfo/gmod-web-cmts
+
| [[Turnkey]] code updates.
| Probably inactive, replaced by turnkey-devel
+
 
|-
 
|-
|gmod-chado-seq-ad
+
|}
|https://lists.sourceforge.net/lists/listinfo/gmod-chado-seq-ad
+
 
|
+
== A Few Non GMOD Lists ==
 +
 
 +
There are a couple of mailing lists that, while not affiliated with GMOD, often have content of interest to the GMOD community.
 +
 
 +
{| class="wikitable"
 +
! List Link(s)
 +
! Comment
 +
! Archive(s)
 
|-
 
|-
|apollo
+
| [http://www.biocurator.org/emaillist.shtml ISB] (formerly [http://mailman.tairgroup.org/mailman/listinfo/biocurator Biocurator])
|http://mail.fruitfly.org/mailman/listinfo/apollo
+
| List for biological data curators and informatics people who support them.  If you are interested in how biological databases are created, maintained and used, then subscribe to this list.
|[[Apollo]] mailing list
+
| [http://mailman.tairgroup.org/pipermail/biocurator/ TAIR] (2009/12-)
 
|-
 
|-
|turnkey-devel 
+
| [http://lists.open-bio.org/mailman/listinfo/bioperl-l Bioperl-l]
|https://lists.sourceforge.net/lists/listinfo/turnkey-devel
+
| Primary [[BioPerl]] mailing list and is meant both for developers as well as people who are interested in project issues and internals. The place where usage, code modifications, bugs & feature requests are discussed.  If you do development with any of GMOD's [[:Category:Perl|Perl based]] components then this is a useful list.
 
|
 
|
 
|-
 
|-
|mart-dev
+
| [http://lists.open-bio.org/mailman/listinfo/open-bio-l OBF cross-project]
|http://www.biomart.org/contact.html
+
| This list is for [http://open-bio.org Open Bioinformatics Foundation (OBF)] projects to cross talk such as for OBDA and BioSQL issues.
|[[BioMart]] mailing list
+
|
|-
+
 
|}
 
|}
 +
 +
[[Category:Help]]
 +
[[Category:GMOD Community]]
 +
[[Category:GMOD Developers]]

Latest revision as of 17:02, 16 May 2016

This page lists most of the mailing lists relevant to GMOD. The default location for GMOD related lists is SourceForge, but lists are actually implemented on various servers all over the world.

The lists are broken into several categories:

We also include pointers to a few non GMOD lists that are of general interest.


Searching Email Lists

GMOD Archive at Nabble
Search
Archive
  GMOD's default mailing list server is Sourceforge. Sourceforge, however, has a notoriously hard to use mail archive search facility. Therefore, we try to archive mailing lists on sites that have friendlier search facilites, such as Nabble, Gmane.org, and Google groups. The tables below link to these archives, whenever they exist.

Posting to and Membership in Email Lists

Most GMOD lists require you to be a member of the list to post to the list. If you aren't a member, your post will be deferred until one of that list's managers has a chance to review your posting. Therefore, we strongly suggest that join a list before posting to it.

Overview Lists

Topic List Link Comment Archive(s)
Announcements gmod-announce Low volume GMOD announcements. Moderated. Gmane, Nabble (2010/05+), Sourceforge
GMOD Developers List gmod-devel General GMOD developer list. Gmane, Nabble (2010/05+), Sourceforge

Component Lists

Mailing lists about specific GMOD Components.

Component Subscribe Link Comment Archive(s)
Apollo and WebApollo apollo Apollo and WebApollo mailing list Gmane (2008/04-2010/10), Nabble (2010/05+)
gmod-apollo-cmts Apollo and WebApollo code updates.
BioMart announce BioMart announcements mailing list Nabble (2010/06+)
users BioMart users, developers, code and installation Nabble (2010/06+)
Chado gmod-schema All issues regarding Chado, Chado::AutoDBI, and Bio::Chado::Schema Gmane, Nabble (2010/05+), Sourceforge
gmod-schema-cmts Chado code updates. Sourceforge
Galaxy
(Search everything)
galaxy-announce Announcements of interest to the Galaxy community. Low volume and moderated. Nabble, Mailman
Galaxy Help General questions and discussion about using Galaxy. Also used for announcements relevant to the Galaxy user community. This is not a mailing list, but an online forum, based on the popular Discourse platform. High volume.
galaxy-dev Discussion and questions regarding local installations and development of Galaxy. Medium volume. Nabble, Mailman
GBrowse & GBrowse_syn gmod-gbrowse GBrowse and GBrowse_syn users and developers. Gmane, Nabble (2010/05+), Sourceforge
gmod-gbrowse-cmts Code updates. Sourceforge
InterMine dev InterMine support and development list. InterMine, Nabble (2010/05+)
JBrowse gmod-ajax JBrowse help and general questions. Nabble (2010/05+), Sourceforge
jbrowse-dev JBrowse development discussions. Nabble (2011/08+)
MAKER maker-devel MAKER developers and users list. Google, Nabble (2010/05+)
Pathway Tools ptools-users@ai.sri.com Pathway Tools users list. To subscribe to this list, send a request to ptools-support@ai.sri.com. None
Sybil sybil-info Sybil mailing list. Sourceforge
Textpresso A support mailing list and a community web site are under development for Textpresso. In the mean time, if you have support questions, please send them to textpresso@caltech.edu. See the Textspresso website for help.
Tripal gmod-tripal Tripal-related announcements, questions, and requests for help from developers and the community. Nabble (2010/05+), Sourceforge
gmod-tripal-devel Tripal development list Nabble, Sourceforge

Topic Based Lists

These mailing lists are about general topics of interest, rather than about specific software components.

Name List Link Topics Archive(s)
CoGePhy gmod-cogephy Discussion of comparative genomics, phylogeny, and related topics. Nabble, SourceForge
PhenDiver gmod-phendiver Discussion of phenotype, natural diversity, population genetics and related topics. Nabble, SourceForge

Inactive Lists

As of May 2016

As of May 2016, these lists have not had postings in the past 12 months.

Component Subscribe Link Comment Archive(s)
Bio::Graphics gmod-biographics-commits Bio::Graphics code updates. Sourceforge
CMap gmod-cmap Discussion of CMap development, installation problems, etc. Nabble (2010/05+), Sourceforge
gmod-cmap-commits Notification of SVN activity for CMap. Sourceforge
DIYA diyg-pub-l DIYA general discussion and support. Nabble (2010/05+)
diyg-dev-l DIYA developer discussion.
Ergatis ergatis-users Ergatis users mailing list. Nabble (2010/05+), Sourceforge
announcement Ergatis announcements. Nabble (2010/05+), Sourceforge
ergatis-devel Ergatis developers. Nabble (2010/05+), Sourceforge
ISGA isga-users ISGA support, development, and announcements mailing list Nabble
Modware gmod-ware-users Modware support and developer mailing list. Nabble (2010/05+), Sourceforge
WebGBrowse gmod-webgbrowse Questions, announcements, and development postings about the WebGBrowse front end to GBrowse configuration. Nabble, Sourceforge

As of August 2008

As of August 2008, these lists have not had postings in the past 12 months.

List Comment
gmod-architecture GMOD architecture working group list.
gmod-chado-seq-ad Last post November 2006.
gmod-citrina Citrina mailing list. Last post June 2006. Citrina is no longer supported by GMOD.
gmod-cmae CMAE mailing list. Last post July 2007.
gmod-das2-cmts Distributed Annotation System mailing list. Last commit June 2007.
gmod-gene-page Last post December 2005. This topic was restarted at the July 2008 GMOD Meeting and the discussion is now happening on the gmod-devel list. So, the list is dead, but not the topic.
gmod-ontol-sw-dev Coordination of software and architecture for ontologies.
gmod-pubsearch-dv PubSearch mailing list.
gmod-resources Last post July 2005.
gmod-web-cmts Last post December 2004.
turnkey-users Turnkey user list. Last post 2008.
turnkey-devel Turnkey development list. Last post 2008.
turnkey-cmts Turnkey code updates.

A Few Non GMOD Lists

There are a couple of mailing lists that, while not affiliated with GMOD, often have content of interest to the GMOD community.

List Link(s) Comment Archive(s)
ISB (formerly Biocurator) List for biological data curators and informatics people who support them. If you are interested in how biological databases are created, maintained and used, then subscribe to this list. TAIR (2009/12-)
Bioperl-l Primary BioPerl mailing list and is meant both for developers as well as people who are interested in project issues and internals. The place where usage, code modifications, bugs & feature requests are discussed. If you do development with any of GMOD's Perl based components then this is a useful list.
OBF cross-project This list is for Open Bioinformatics Foundation (OBF) projects to cross talk such as for OBDA and BioSQL issues.