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This is the mailing list for Open Tree of Life (
http://opentreeoflife.org
), an NSF-funded project to build an evolutionary tree for all species and the framework to continually edit and revise the draft tree.
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Christine Ewers
6/7/21
Choosing specific ("best") backbone phylogeny?
Dear all, my colleagues and I just published an updated classification for barnacles, which reflects
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Choosing specific ("best") backbone phylogeny?
Dear all, my colleagues and I just published an updated classification for barnacles, which reflects
6/7/21
monica steffi matchado
,
Karen Cranston
2
7/16/20
Supporting files for QIIME2
Hi Monica, I just replied over on the open github issue: https://github.com/OpenTreeOfLife/opentree/
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Supporting files for QIIME2
Hi Monica, I just replied over on the open github issue: https://github.com/OpenTreeOfLife/opentree/
7/16/20
Mark Holder
,
Emily Jane McTavish
2
4/20/20
Link to Info page for updates on the April 11 hack that has caused Open Tree downtime
Hi all, The Open Tree of Life websites and API are back online! We have temporarily paused study
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Link to Info page for updates on the April 11 hack that has caused Open Tree downtime
Hi all, The Open Tree of Life websites and API are back online! We have temporarily paused study
4/20/20
Mark Holder
4/11/20
Open Tree of Life update on April downtime
Hello, Today (Apr 11 in the afternoon US time) several of the Open Tree of Life web-servers were
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Open Tree of Life update on April downtime
Hello, Today (Apr 11 in the afternoon US time) several of the Open Tree of Life web-servers were
4/11/20
Cody Hinchliff
, …
Hilmar Lapp
7
11/21/18
Fwd: Permission of a paper's figure
The only problem that I can see here is the question on what you actually have the copyright on. Is
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Fwd: Permission of a paper's figure
The only problem that I can see here is the question on what you actually have the copyright on. Is
11/21/18
Mark Holder
7/26/18
possible downtime Thursday, July 26 and Friday, July 27 201
Hi folks, Sorry the dates were wrong in the previous email... Due to some maintenance tasks by our
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possible downtime Thursday, July 26 and Friday, July 27 201
Hi folks, Sorry the dates were wrong in the previous email... Due to some maintenance tasks by our
7/26/18
Mark Holder
7/26/18
possible downtime Thursday, July 20 and Friday, July 21 2018
Hi folks, Due to some maintenance tasks by our cloud-computing provider, the servers for our front-
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possible downtime Thursday, July 20 and Friday, July 21 2018
Hi folks, Due to some maintenance tasks by our cloud-computing provider, the servers for our front-
7/26/18
Alexander Ulrich
, …
Joseph Brown
15
1/23/17
Q&A
How can I obtain a phylogenetic tree for a subset of species?
Hi Joseph, Thank you so much for your help and effort! I think you are right, since ~ 1/3 can not be
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Q&A
How can I obtain a phylogenetic tree for a subset of species?
Hi Joseph, Thank you so much for your help and effort! I think you are right, since ~ 1/3 can not be
1/23/17
Karen Cranston
12/7/16
OpenTree v 8.0 and easier addition to synthesis
We have a new version of the synthetic tree and an easier way to add trees to synthesis. == New
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OpenTree v 8.0 and easier addition to synthesis
We have a new version of the synthetic tree and an easier way to add trees to synthesis. == New
12/7/16
Karen Cranston
9/23/16
new versions of tree and taxonomy
We have just release version 7.0 of Open Tree of Life, along with version 2.10 of the Open Tree
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new versions of tree and taxonomy
We have just release version 7.0 of Open Tree of Life, along with version 2.10 of the Open Tree
9/23/16
Karen Cranston
8/5/16
new synthesis tree; other features
We have just released a new version of the synthetic tree as well as some new website features: I.
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new synthesis tree; other features
We have just released a new version of the synthetic tree as well as some new website features: I.
8/5/16
Yan Wong
, …
Tony Rees
5
7/5/16
Big cats
Change in new version of IRMNG as of now (Uncia uncia -> Panthera uncia), thanks... Tony Rees, New
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Big cats
Change in new version of IRMNG as of now (Uncia uncia -> Panthera uncia), thanks... Tony Rees, New
7/5/16
Marc Jones
, …
Jonathan A Rees
4
7/4/16
Rhynchocephalia
Fixed in draft taxonomy (not yet on web site). Tracking at https://github.com/OpenTreeOfLife/feedback
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Rhynchocephalia
Fixed in draft taxonomy (not yet on web site). Tracking at https://github.com/OpenTreeOfLife/feedback
7/4/16
Karen Cranston
5/10/16
returning references with subtrees
A long outstanding OpenTree issue has been the need to return a reference list along with any subtree
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returning references with subtrees
A long outstanding OpenTree issue has been the need to return a reference list along with any subtree
5/10/16
Karen Cranston
, …
Yan Wong
20
4/19/16
new versions synthesis tree, APIs
On 19 Apr 2016, at 21:21, Mark Holder <mtho...@gmail.com> wrote: > sorry for the delay. No
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new versions synthesis tree, APIs
On 19 Apr 2016, at 21:21, Mark Holder <mtho...@gmail.com> wrote: > sorry for the delay. No
4/19/16
Christine Ewers
, …
Mark Holder
17
4/13/16
Q&A
New synthetic tree for barnacles collection?
Hi, Thanks for pointing this out. I started an issue https://github.com/OpenTreeOfLife/reference-
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Q&A
New synthetic tree for barnacles collection?
Hi, Thanks for pointing this out. I started an issue https://github.com/OpenTreeOfLife/reference-
4/13/16
Yan Wong
4/11/16
Generic URL for a taxon
Is there a generic URL I can use to jump to an OTT node on the latest version of the online tree. Eg
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Generic URL for a taxon
Is there a generic URL I can use to jump to an OTT node on the latest version of the online tree. Eg
4/11/16
Yan Wong
,
Jonathan A Rees
3
4/11/16
strange sources
On Sunday, 3 April 2016 17:26:49 UTC+1, Jonathan Rees wrote: Nope, these are all intended. Ah - OK.
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strange sources
On Sunday, 3 April 2016 17:26:49 UTC+1, Jonathan Rees wrote: Nope, these are all intended. Ah - OK.
4/11/16
Paul Sztajer
4/2/16
"The Path" - Artwork based on the Open Tree of Life
I found out about this project last September when you published the draft version, and was inspired
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"The Path" - Artwork based on the Open Tree of Life
I found out about this project last September when you published the draft version, and was inspired
4/2/16
Karen Cranston
3/30/16
beta versions of new tree, APIs
We will release the next version of the synthetic tree and the APIs next week. If you want a sneak
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beta versions of new tree, APIs
We will release the next version of the synthetic tree and the APIs next week. If you want a sneak
3/30/16
Ubirajara Oliveira
,
Karen Cranston
2
3/28/16
tree with phylogeny-only tips
Within the next week. Is that soon enough? On Mon, Mar 28, 2016 at 12:12 PM Ubirajara Oliveira <
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tree with phylogeny-only tips
Within the next week. Is that soon enough? On Mon, Mar 28, 2016 at 12:12 PM Ubirajara Oliveira <
3/28/16
Arlin Stoltzfus
3/17/16
phylotastic mobile app - request for alpha testers
Hello all. The first soft release of the phylotastic mobile app is due out next week. The workflow is
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phylotastic mobile app - request for alpha testers
Hello all. The first soft release of the phylotastic mobile app is due out next week. The workflow is
3/17/16
Karen Cranston
3/15/16
hangout tomorrow
A reminder to core folks about the hangout tomorrow. I assume that we are all plowing forward with
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hangout tomorrow
A reminder to core folks about the hangout tomorrow. I assume that we are all plowing forward with
3/15/16
Karen Cranston
3/14/16
spec for v3 APIs
The spec for version 3 of the APIs is now finalized. Once implemented, this will allow for both
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spec for v3 APIs
The spec for version 3 of the APIs is now finalized. Once implemented, this will allow for both
3/14/16
François Michonneau
,
Karen Cranston
3
3/10/16
Number of studies
Perfect, thanks! On Thu, Mar 10, 2016 at 11:38 AM, Karen Cranston <karen.c...@gmail.com>
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Number of studies
Perfect, thanks! On Thu, Mar 10, 2016 at 11:38 AM, Karen Cranston <karen.c...@gmail.com>
3/10/16
Ubirajara Oliveira
,
Karen Cranston
3
3/8/16
data tips
Dear Karen, In the fact, I need only of the tree with phylogeny-only tips. I look forward the release
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data tips
Dear Karen, In the fact, I need only of the tree with phylogeny-only tips. I look forward the release
3/8/16
Karen Cranston
2/18/16
new conflict service
We just deployed a new conflict service in the OpenTree web application. For any published tree in
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new conflict service
We just deployed a new conflict service in the OpenTree web application. For any published tree in
2/18/16
Karen Cranston
1/15/16
communication changes
Hello opentree mailing list subscribers, We've made some changes to our communication channels
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communication changes
Hello opentree mailing list subscribers, We've made some changes to our communication channels
1/15/16
Karen Cranston
, …
Tony Rees
5
1/12/16
taxonomy browser
Hi Jonathan, To me it would make sense if the default sort were to be grouped by rank high-low, then
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taxonomy browser
Hi Jonathan, To me it would make sense if the default sort were to be grouped by rank high-low, then
1/12/16
Yan Wong
,
Jonathan A Rees
2
12/28/15
Duplicate scientific names in tree
Agreed, these could all use some attention. I see no automated fix, so each case will require TLC.
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Duplicate scientific names in tree
Agreed, these could all use some attention. I see no automated fix, so each case will require TLC.
12/28/15