raxmlgui-news Mailing List for raxmlGUI

Dear Mac users of raxmlGUI,

Apple's recent security measures imply that programs from developers that
are not registered at Apple do not run on Mac computers by default.
Typically, when you try to run the program you get a message such as:

"the package is damaged and should be moved to the trash"

*To be able to run the raxmlGUI app on your Mac you must change the System
Preferences to allow software from unidentified developers to run. *

*On Mac OSX 10.9*
1. Open System Preferences (available from the apple menu)
2. Open "Security & Privacy"
3. Change the setting to "Allow apps downloaded from: Anywhere"

*On more recent MacOS versions*
1. Control-click the app icon, then choose Open from the shortcut menu
2. Click Open
The app is now saved as an exception to your security settings, and you can
open it in the future by double-clicking it just as you can any registered
app.

You can also grant an exception for a blocked app by clicking the “Open
Anyway” button in the General pane of Security & Privacy preferences. This
button is available for about an hour after you try to open the app.
To open this pane, choose Apple menu > System Preferences, click Security &
Privacy, then click General.

More information can be found at the Apple website
<." rel="nofollow">https://support.apple.com/kb/PH25088?locale=en_US>.

I hope this helps. Thank you for using raxmlGUI!
All the best,
Daniele and Ingo

Dear Ingo,

Thanks for the reply. Yes, that question is still relevant to me.
Unfortunately, if the GUI version does not implement ASC yet, it will not
be useful to me or most users using morphological data since almost all
morphological data is sampled with variable characters only.

Anyways, thanks for clarifying it to me.

Best regards,

Tiago

On Sat, May 20, 2017 at 10:53 AM, raxmlGUI <rax...@go...>
wrote:

> Dear Tiago,
>
> please excuse the extensive delay. In case your question is still relevant
> here goes my reply:
>
> RAxML accepts only one model for rate heterogeneity across all partitions.
> In case you choose "GAMMA" your morphological data will be analysed under
> MULTIGAMMA and your DNA will be analysed under GTRGAMMA. The settings for
> the multistate partition (ORDERED, MK, GTR) only apply to the multistate
> partition (like in the -K command in standalone RAxML).
>
> The ASC models are not (yet) implemented in raxmlGUI, unfortunately.
>
> Let me know if there are further questions (I promise my reply will be
> quicker this time!).
>
> Best regards
> Ingo
>
>
> On 28.04.2017 21:11, Tiago Simoes wrote:
>
> Hello,
>
> I would like to set different substitution models per data type in the GUI
> version of RAxML. I have morphological and molecular data, each one set as
> distinct partitions. However, once the partitions for each data type are
> defined, I am not sure on how to specify distinct substitution models to
> each partition. The model options that show in the models menu are
> applicable to the data I have e.g. the GTR and MK model show up), but it is
> unclear which model I am applying to each data type. It seems that there
> can be only one model applied to all partitions (equivalent to the -k
> command in the comman line version of RAxML). Is that the case?
>
> Another issue I had is that I did not find a way to specify the ASC for
> the morphological data along with the Mk model.
>
> Any input will be quite helpful.
>
> All the best,
>
> --
> *Tiago R. Simões*
> PhD candidate and Killam laureate
> https://www.researchgate.net/profile/Tiago_Simes2
> University of Alberta - Department of Biological Sciences
> Biological Sciences Building, Z-419
> Edmonton, Alberta
> Canada
> T6G 2E9
>
>
> ------------------------------------------------------------------------------
> Check out the vibrant tech community on one of the world's most
> engaging tech sites, Slashdot.org! http://sdm.link/slashdot
>
>
>
> _______________________________________________
> raxmlGUI-news mailing lis...@li...://lists.sourceforge.net/lists/listinfo/raxmlgui-news
>
>
>


-- 
*Tiago R. Simões*
PhD candidate and Killam laureate
https://www.researchgate.net/profile/Tiago_Simes2
University of Alberta - Department of Biological Sciences
Biological Sciences Building, Z-419
Edmonton, Alberta
Canada
T6G 2E9

Dear Tiago,

please excuse the extensive delay. In case your question is still 
relevant here goes my reply:

RAxML accepts only one model for rate heterogeneity across all 
partitions. In case you choose "GAMMA" your morphological data will be 
analysed under MULTIGAMMA and your DNA will be analysed under GTRGAMMA. 
The settings for the multistate partition (ORDERED, MK, GTR) only apply 
to the multistate partition (like in the -K command in standalone RAxML).

The ASC models are not (yet) implemented in raxmlGUI, unfortunately.

Let me know if there are further questions (I promise my reply will be 
quicker this time!).

Best regards
Ingo



On 28.04.2017 21:11, Tiago Simoes wrote:
> Hello,
>
> I would like to set different substitution models per data type in the 
> GUI version of RAxML. I have morphological and molecular data, each 
> one set as distinct partitions. However, once the partitions for each 
> data type are defined, I am not sure on how to specify distinct 
> substitution models to each partition. The model options that show in 
> the models menu are applicable to the data I have e.g. the GTR and MK 
> model show up), but it is unclear which model I am applying to each 
> data type. It seems that there can be only one model applied to all 
> partitions (equivalent to the -k command in the comman line version of 
> RAxML). Is that the case?
>
> Another issue I had is that I did not find a way to specify the ASC 
> for the morphological data along with the Mk model.
>
> Any input will be quite helpful.
>
> All the best,
>
> -- 
> *Tiago R. Simões*
> PhD candidate and Killam laureate
> https://www.researchgate.net/profile/Tiago_Simes2
> University of Alberta - Department of Biological Sciences
> Biological Sciences Building, Z-419
> Edmonton, Alberta
> Canada
> T6G 2E9
>
>
> ------------------------------------------------------------------------------
> Check out the vibrant tech community on one of the world's most
> engaging tech sites, Slashdot.org! http://sdm.link/slashdot
>
>
> _______________________________________________
> raxmlGUI-news mailing list
> rax...@li...
> https://lists.sourceforge.net/lists/listinfo/raxmlgui-news

Hello,

I would like to set different substitution models per data type in the GUI
version of RAxML. I have morphological and molecular data, each one set as
distinct partitions. However, once the partitions for each data type are
defined, I am not sure on how to specify distinct substitution models to
each partition. The model options that show in the models menu are
applicable to the data I have e.g. the GTR and MK model show up), but it is
unclear which model I am applying to each data type. It seems that there
can be only one model applied to all partitions (equivalent to the -k
command in the comman line version of RAxML). Is that the case?

Another issue I had is that I did not find a way to specify the ASC for the
morphological data along with the Mk model.

Any input will be quite helpful.

All the best,

-- 
*Tiago R. Simões*
PhD candidate and Killam laureate
https://www.researchgate.net/profile/Tiago_Simes2
University of Alberta - Department of Biological Sciences
Biological Sciences Building, Z-419
Edmonton, Alberta
Canada
T6G 2E9

Dear Yong-gil Lee,

raxmlGUI includes and uses an original RAxML executable. The analyses 
will be carried out in RAxML.
The result files should appear in the folder of your input files, in 
some cases it should ask you where you want to save the files.

I hope this helps.

Best regards
Ingo

Date: Tue May 24 2016 11:37:02 GMT+0200 (CEST)
Author: 이용길 (lyg...@gm...)
Subject: I have question in relationship RAxML with raxmlGUI
To: rax...@li..., rax...@gm..., 
dan...@se..., ing...@se...,
> Dear authors.
>
> Hello, my name is yong-gil Lee.
>
> I'm a bachelor student in Dankook university in Republic of Korea.
>
> I'm interested in Molecular phylogenetics and Bioinformatics.
>
> I had a subject that announcing program for construction and drawing 
> phylogenetic tree.
>
> While I had searched several program for construction and drawing 
> phylogenetic tree, I found RAxML.
>
> But I don't know this "cmd.exe", exactly.
>
> Therefore, I replace Raxml GUI.
>
> However, this has not supported officialy from Raxml's author.
>
> Then, I have question in two aspects.
>
> First, Is Raxml GUI included original function of Raxml?
>
> Second, Where save Raxml GUI export files?
>
> If you could get back to me, I'd appreciate it.
>
> Thank you for your time and consideration.
>
> Respectfully,
>
> Yong-gil Lee.

Dear authors.

Hello, my name is yong-gil Lee.

I'm a bachelor student in Dankook university in Republic of Korea.

I'm interested in Molecular phylogenetics and Bioinformatics.

I had a subject that announcing program for construction and drawing
phylogenetic tree.

While I had searched several program for construction and drawing
phylogenetic tree, I found RAxML.

But I don't know this "cmd.exe", exactly.

Therefore, I replace Raxml GUI.

However, this has not supported officialy from Raxml's author.

Then, I have question in two aspects.

First, Is Raxml GUI included original function of Raxml?

Second, Where save Raxml GUI export files?

If you could get back to me, I'd appreciate it.

Thank you for your time and consideration.

Respectfully,

Yong-gil Lee.

Dear raxmlGUI users,
we are excited to announce that we now provide the new beta version 
1.5b1 of raxmlGUI on Sourceforge 
(http://sourceforge.net/projects/raxmlgui/), in which for the first time 
it is possible to run RAxML on CIPRES directly from within raxmlGUI. 
Make use of the super computer cluster but have the comfort of a local 
graphical user interface.

We are highly interested in your feedback, bug reports, and suggestions 
for additional features. You can contact us at rax...@gm... 
or here.

Best regards
Daniele and Ingo

Dear raxmlGUI users,

We are currently working on an update to raxmlGUI that might interest 
many of you:
Together with Mark Miller and Terri Schwartz from the SDSC 
<," rel="nofollow">http://www.sdsc.edu/>, we will provide the possibility to run your 
analyses on the supercomputers of the CIPRES Science Gateway 
<" rel="nofollow">https://www.phylo.org/> infrastructure directly from within raxmlGUI. 
This means you can set up your analyses using all raxmlGUI 
functionalities and then take advantage of the high performance 
computing power of the CIPRES servers for the actual RAxML run. This 
will speed up analyses of big data sets and lift the heavy work from 
your computer.

An early alpha version with limited functions is almost ready and will 
be uploaded soon. Stay tuned!

Best
Daniele and Ingo

Dear Miro,
the file you attached opens and runs ok on my system. Could you please 
provide us with the output that is printed to the 
console/terminal/command-window (in windows you can mark the text after 
right-click -> "mark", then right click again and ctrl-v in your mail, 
screen shot would be fine as well)?

Cheers
Ingo



On 06.10.2014 11:17, Valarik Miroslav wrote:
>
> Hi,
>
> I need to analyze binary data converted from genotyping of SSR, PAV 
> and SNP markers. The data are in PHYLIP format including 0, 1, and ? 
> (missing data) characters (please see the attached file).
>
> I installed PHYTON 2.7 and raxmlGUI 1.3. on win 7.  The raxmlGUI 
> starts OK. I set in data type “binary” and left it in BINGAMMA format. 
> After opening the input data  through Ctrl-O the data are shown in the 
> maim window, but error message appears that the format is not 
> recognized (see the attached figure).
>
> I tried the import data from NEUXS format created by PowerMarker, but 
> I have got the same error message.  The DentroPy library was installed 
> OK and test was OK too.
>
> Could you please, recommend how to fix the software or the file 
> format. Also what would be the most reliable tree construction method 
> (171 taxa and 32 markers including little missing data less than 0,5% 
> ). Outgroup is included with about 10 milion years divergence time 
> however all markers are different. For the SNPs I used 0/1 characters 
> for  different nucleotides (only two variants per SNP were observed) 
> but for the outgroup I would need additional character. Would it be 
> possible or it is better to remove the outgroup taxa from the analysis?
>
> Thanks in an advance,
>
> Miro.
>
> -----------------------------------------------------------------------------------
>
> Miroslav Valarik
>
> Centre of the Region Haná for Biotechnological and Agricultural Research
>
> Centre of Plant Structural and Functional Genomics
>
> Institute of Experimental Botany AS CR
>
> Slechtitelu 31
>
> Building E
>
> 78371 Olomouc
>
> Czech Republic
>
> va...@ue... <mailto:va...@ue...>
>
> Tel: +420 585 238 714
>
> Fax: +420 585 238 704
>
> www: http://olomouc.ueb.cas.cz/
>
> Skype: valarik-pracovni
>
> --------------------------------------------------------------------------------- 
>
>
>
>
> ------------------------------------------------------------------------------
> Slashdot TV.  Videos for Nerds.  Stuff that Matters.
> http://pubads.g.doubleclick.net/gampad/clk?id=160591471&iu=/4140/ostg.clktrk
>
>
> _______________________________________________
> raxmlGUI-news mailing list
> rax...@li...
> https://lists.sourceforge.net/lists/listinfo/raxmlgui-news

  10   32
A1    00000010101000001011110101111111
A2    00001000101000001011111111111111
A3    00001000100100001011111111111111
A4    10001000101000100011111111111111
A5    00000010100100001011111110110111
A6    00000010101000001011111111111111
A7    11000100100100001011111111111111
A8    11000100100100001011111111111111
A9    00000010101000000111111110110111
A10   00000010011000100011110100110111

Hi I download the Phyton 2.7.8 and raxmlGUI1.3
But when I doubleclick to start the program, only the "dos" windows open
for a second and doesn´t work. (in my orther computer with Windows 7 I did
the same and everything works fine
best wishes

Eric de Camargo Smidt
________________________________________
Prof. Adjunto II
Coordenador PPG-BOT/UFPR
Departamento de Botânica, sala 446
Setor de Ciências Biológicas
Centro Politécnico - UFPR
Caixa Postal 19031
Cep 81531-990
Curitiba, PR - Brasil
e-mail: ec...@uf...
http://lattes.cnpq.br/1539716845687200
http://www.labfilogeniabotanicaufpr.webs.com/

Oops, that was it. It runs if I reformat; multistate doesn't seem to work
unless there's at least one cell with character state 0. Very helpful,
thanks!

This was the only matrix I analysed as binary, so I suppose the problem I
had had to do with not having all the implied character states in the
matrices. This is quite plausible, since I was keeping out a few species
from my test matrices. I'll try them out again, making sure of having no
"missing" character state numbers.

Thanks again for the quick response, and all the best,

E.


On 22 February 2014 01:50, Ingo Michalak <rax...@go...>wrote:

> Dear Eduardo,
> binary data should only contain 0 and 1. Try to analyse with multi state
> or reformat your data. Please keep us updated if this helped!
> Best
> Ingo
>
> On February 22, 2014 1:38:02 AM CET, Eduardo Ascarrunz <ea...@gm...>
> wrote:
>
>> Hi everyone,
>>
>> I've been stumbling with the following error message when I try to launch
>> an analysis (Windows 8.1, Python 2.7):
>>
>> Windows cannot find 'RAXML_bipartitions.sim.tre'. Make sure you've typed
>>> the name correctly, then try again.
>>
>>
>> ("sim" is the output name in this case)
>>
>> And the analysis is aborted. This does not happen every time with every
>> dataset, and sometimes changing one setting here or there seems to help,
>> but I've been unable to find any pattern in the settings of the program
>> when I get the error messages. The following is one of the matrices with
>> which I get the error:
>>
>> 9 108
>>> s9
>>> 121111121111211222122111111211122112111112121221212221222221221112122211211111111121112111122122121112112221
>>> s1
>>> 212111112111112211121111122112211111111121221221111111111122211122111111211111211211211111111111121211221111
>>> s2
>>> 221122122111111111212111112112111112212211221121111111221112122112112112112211121111212111211111112121122121
>>> s3
>>> 211122212111221112212121222111212121112121211221111111111111111111111211111112211111112211212111122221121112
>>> s4
>>> 211122212111221212212121222111221122111121221222111111111111111122111211111112211111112221212111122221121111
>>> s5
>>> 111121212121222112112121112111212122112111221121221112111111111121112211111112211211212211212111122121121211
>>> s6
>>> 111211112112221121212211112111211222222121111121211111111122111121111111121121211111211211111112222211112211
>>> s7
>>> 111111112112121121211121122122211121212122211121211111111111111111111111221221211211211221111111211121122122
>>> s8
>>> 111111112111221121211121122122211121212122211121211111112111111111111111121121222111211221111111111121122121
>>
>>
>> I set the data type as binary, and the outgroup as "s9". I touch nothing
>> else and I get the error.
>>
>> I thought it could be a permissions issue, so I've tried running the
>> program from my Documents directory as well. It isn't that.
>>
>> I'd appreciate any help.
>>
>> Best,
>>
>> E.
>>
>> ------------------------------
>>
>> Managing the Performance of Cloud-Based Applications
>> Take advantage of what the Cloud has to offer - Avoid Common Pitfalls.
>> Read the Whitepaper.
>> http://pubads.g.doubleclick.net/gampad/clk?id=121054471&iu=/4140/ostg.clktrk
>>
>> ------------------------------
>>
>> raxmlGUI-news mailing list
>> rax...@li...
>> https://lists.sourceforge.net/lists/listinfo/raxmlgui-news
>>
>>

Dear Eduardo, 
binary data should only contain 0 and 1. Try to analyse with multi state or reformat your data. Please keep us updated if this helped! 
Best 
Ingo 

On February 22, 2014 1:38:02 AM CET, Eduardo Ascarrunz <ea...@gm...> wrote:
>Hi everyone,
>
>I've been stumbling with the following error message when I try to
>launch
>an analysis (Windows 8.1, Python 2.7):
>
>Windows cannot find 'RAXML_bipartitions.sim.tre'. Make sure you've
>typed
>> the name correctly, then try again.
>
>
>("sim" is the output name in this case)
>
>And the analysis is aborted. This does not happen every time with every
>dataset, and sometimes changing one setting here or there seems to
>help,
>but I've been unable to find any pattern in the settings of the program
>when I get the error messages. The following is one of the matrices
>with
>which I get the error:
>
>9 108
>> s9
>>
>121111121111211222122111111211122112111112121221212221222221221112122211211111111121112111122122121112112221
>> s1
>>
>212111112111112211121111122112211111111121221221111111111122211122111111211111211211211111111111121211221111
>> s2
>>
>221122122111111111212111112112111112212211221121111111221112122112112112112211121111212111211111112121122121
>> s3
>>
>211122212111221112212121222111212121112121211221111111111111111111111211111112211111112211212111122221121112
>> s4
>>
>211122212111221212212121222111221122111121221222111111111111111122111211111112211111112221212111122221121111
>> s5
>>
>111121212121222112112121112111212122112111221121221112111111111121112211111112211211212211212111122121121211
>> s6
>>
>111211112112221121212211112111211222222121111121211111111122111121111111121121211111211211111112222211112211
>> s7
>>
>111111112112121121211121122122211121212122211121211111111111111111111111221221211211211221111111211121122122
>> s8
>>
>111111112111221121211121122122211121212122211121211111112111111111111111121121222111211221111111111121122121
>
>
>I set the data type as binary, and the outgroup as "s9". I touch
>nothing
>else and I get the error.
>
>I thought it could be a permissions issue, so I've tried running the
>program from my Documents directory as well. It isn't that.
>
>I'd appreciate any help.
>
>Best,
>
>E.
>
>
>------------------------------------------------------------------------
>
>------------------------------------------------------------------------------
>Managing the Performance of Cloud-Based Applications
>Take advantage of what the Cloud has to offer - Avoid Common Pitfalls.
>Read the Whitepaper.
>http://pubads.g.doubleclick.net/gampad/clk?id=121054471&iu=/4140/ostg.clktrk
>
>------------------------------------------------------------------------
>
>_______________________________________________
>raxmlGUI-news mailing list
>rax...@li...
>https://lists.sourceforge.net/lists/listinfo/raxmlgui-news

Hi everyone,

I've been stumbling with the following error message when I try to launch
an analysis (Windows 8.1, Python 2.7):

Windows cannot find 'RAXML_bipartitions.sim.tre'. Make sure you've typed
> the name correctly, then try again.


("sim" is the output name in this case)

And the analysis is aborted. This does not happen every time with every
dataset, and sometimes changing one setting here or there seems to help,
but I've been unable to find any pattern in the settings of the program
when I get the error messages. The following is one of the matrices with
which I get the error:

9 108
> s9
> 121111121111211222122111111211122112111112121221212221222221221112122211211111111121112111122122121112112221
> s1
> 212111112111112211121111122112211111111121221221111111111122211122111111211111211211211111111111121211221111
> s2
> 221122122111111111212111112112111112212211221121111111221112122112112112112211121111212111211111112121122121
> s3
> 211122212111221112212121222111212121112121211221111111111111111111111211111112211111112211212111122221121112
> s4
> 211122212111221212212121222111221122111121221222111111111111111122111211111112211111112221212111122221121111
> s5
> 111121212121222112112121112111212122112111221121221112111111111121112211111112211211212211212111122121121211
> s6
> 111211112112221121212211112111211222222121111121211111111122111121111111121121211111211211111112222211112211
> s7
> 111111112112121121211121122122211121212122211121211111111111111111111111221221211211211221111111211121122122
> s8
> 111111112111221121211121122122211121212122211121211111112111111111111111121121222111211221111111111121122121


I set the data type as binary, and the outgroup as "s9". I touch nothing
else and I get the error.

I thought it could be a permissions issue, so I've tried running the
program from my Documents directory as well. It isn't that.

I'd appreciate any help.

Best,

E.

Dear raxmlGUI user,

We uploaded a small update raxmlGUI v. 1.3 to fix a bug introduced in the
previous version
that prevented the concatenation of alignments.
In addition we updated the RAxML executable (to 7.4.2), now with support
for FASTA input files.

Please find the update on http://sourceforge.net/projects/raxmlgui/

Questions and feedback are very welcome: rax...@gm...

NOTE: This is the last email you get from us directly, if you like to get
further updates like this,
please subscribe to our mailing list:
https://lists.sourceforge.net/lists/listinfo/raxmlgui-news

Best,
Daniele Silvestro
Ingo Michalak

Hi Andrew,
that's hard to say with no further information... Can you send me the files directly to the address I am writing from? Then I could have a look.
Thanks

Ingo

"Andrew D. Bergemann" <And...@ho...> wrote:

Hi,

 

I am having trouble with RAXMLGUI refusing to run when using a constraint tree that has been generated in the Notepad text editor. Any ideas as to what I am doing wrong? Thanks.

 

Andrew D. Bergemann, Ph. D.

Associate Professor

Rm 205

School of Medicine

Hofstra University NS/LIJ Medical School

500 Hofstra University (North Campus)

Hempstead, NY 11549-1000

(516) 463 7510

and...@ho...

 

Hi,

I am having trouble with RAXMLGUI refusing to run when using a constraint tree that has been generated in the Notepad text editor. Any ideas as to what I am doing wrong? Thanks.

Andrew D. Bergemann, Ph. D.
Associate Professor
Rm 205
School of Medicine
Hofstra University NS/LIJ Medical School
500 Hofstra University (North Campus)
Hempstead, NY 11549-1000
(516) 463 7510
and...@ho...

Dear raxmlGUI user,

We have uploaded raxmlGUI version 1.1 (
" rel="nofollow">http://sourceforge.net/projects/raxmlgui/)<http://sourceforge.net/projects/raxmlgui/>
with the following new features:

* fast tree search with optional branch lengths and SH values calculation
* import/export Nexus alignments using the Dendropy library (with step by
step installation process from within raxmlGUI)
* plotting SH values on ML trees
* option to combine all ML trees into a single file (e.g. for consensus
tree generation)
* enforce monophyletic topological constraints
* new RAxML executables (version 7.3.0)

The main functions of the program are described in our application note:

Silvestro, D. & Michalak, I. (2011) raxmlGUI: A graphical front-end for
RAxML. Organisms Diversity & Evolution, DOI:
10.1007/s13127-011-0056-0<" rel="nofollow">http://dx.doi.org/10.1007/s13127-011-0056-0>

Suggestions and bug reports are appreciated.

Best regards
Daniele Silvestro and Ingo Michalak

Dear raxmlGUI users/developer,


Hello. I am Keigo, trying to construct a phylogeny using raxmlGUI on Mac.
I started to use raxmlGUI a couple of days ago.  I could work with the software well, however, it did not work with the following error messages on Terminal.

sh: -c: line 0: unexpected EOF while looking for matching `"'
sh: -c: line 1: syntax error: unexpected end of file

Could anybody tell me how to solve this problem?


Sincerely,

Keigo

We are more than happy to announce that an application note for raxmlGUI was accepted for publication in Organisms Diversity & Evolution ( http://www.springer.com/life+sciences/ecology/journal/13127 ). Please cite from now on raxmlGUI as follows below. Thank you for your support.

Silvestro, D. and Michalak, I. (accepted) raxmlGUI: a graphical front-end for RAxML. Organisms Diversity & Evolution.

Dear raxmlGUI user,

We have just uploaded an update at http://sourceforge.net/projects/raxmlgui/. 
The new version includes some graphic changes and implements a couple of new features: 

* implemented the new AA models (as in RAxML version 7.2.8)
* compute consensus using the "dropset" function
* reduced memory ML search (RAxML flag '-F')
* key board shortcuts
* menu option to inspect the command that will be run in RAxML
* renewed html help file
* link from the help menu to raxmlGUI mailing list
* minor bug fixes

For suggestions and bug reports:
dan...@se... 
ing...@se...

Best regards
Daniele


Daniele Silvestro, PhD student
Senckenberg Research Institute
Dept. Botany and Molecular Evolution

Senckenberganlage 25
D-60325 Frankfurt am Main 
Germany

Dear raxmlGUI user,

We have just uploaded an update at http://sourceforge.net/projects/raxmlgui/. 
The new version includes minor graphic changes and implements a couple of new features: 

- selection of multiple taxa as outgroup
- interactive definition of topological constraints from a taxon list with the option to export the resulting multi-furcating tree
- renewed menu options
- support for Python 2.7
- some bug fixes

Please report suggestions and bugs to:

dan...@se... 
ing...@se...




Daniele Silvestro, PhD student
Senckenberg Research Institute
Dept. Botany and Molecular Evolution

Senckenberganlage 25
D-60325 Frankfurt am Main 
Germany