Invalid partitionfile format in RAxML Workbench doing EPA
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Marialejandra Castro Farias
Mar 28, 2017, 5:02:57 PM3/28/17
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Hola! I'm working with the stand-alone GUI (RAxML Workbench) using EPA. I did not have any problems when I did not specify any kind of partition, however when I add the partition file (txt format) it tells me: invalid partition format! and points me all partitions. When I use RAxML in the cipres portal I have no problem using the same partition file.
Can you help me please? Attach my matrix and the file with the partitions. I'm working with six genes (ND2, AK1, BFib, ND4, ODC, Musk) with 4425 bp and 59 species.
Muchas gracias!
Alexandros Stamatakis
Mar 30, 2017, 3:40:22 PM3/30/17
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Hola Marialejandra,
Which workbench/GUI are using exactly? The on developed by us or the
third party GUI?
The partition file spec. looks correct to me, so if you can run it in
stand-alone mode with RAxML it must be a problem of the GUI.
Alexis
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Alexandros (Alexis) Stamatakis
Research Group Leader, Heidelberg Institute for Theoretical Studies
Full Professor, Dept. of Informatics, Karlsruhe Institute of Technology
Adjunct Professor, Dept. of Ecology and Evolutionary Biology, University
of Arizona at Tucson
www.exelixis-lab.org
Which workbench/GUI are using exactly? The on developed by us or the
third party GUI?
The partition file spec. looks correct to me, so if you can run it in
stand-alone mode with RAxML it must be a problem of the GUI.
Alexis
> You received this message because you are subscribed to the Google
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--
Alexandros (Alexis) Stamatakis
Research Group Leader, Heidelberg Institute for Theoretical Studies
Full Professor, Dept. of Informatics, Karlsruhe Institute of Technology
Adjunct Professor, Dept. of Ecology and Evolutionary Biology, University
of Arizona at Tucson
www.exelixis-lab.org
Marialejandra Castro Farias
Mar 31, 2017, 12:43:57 PM3/31/17
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Hola Alex! thanks for answering! I am using the version available on your website: stand-alone GUI. I am using the windows version.
2017-03-30 15:40 GMT-04:00 Alexandros Stamatakis <alexandros...@gmail.com>:
Hola Marialejandra,
Which workbench/GUI are using exactly? The on developed by us or the third party GUI?
The partition file spec. looks correct to me, so if you can run it in stand-alone mode with RAxML it must be a problem of the GUI.
Alexis
On 29.03.2017 00:02, Marialejandra Castro Farias wrote:
Hola! I'm working with the stand-alone GUI (RAxML Workbench) using
EPA. I did not have any problems when I did not specify any kind of
partition, however when I add the partition file (txt format) it tells
me: invalid partition format! and points me all partitions. When I use
RAxML in the cipres portal I have no problem using the same partition file.
Can you help me please? Attach my matrix and the file with the
partitions. I'm working with six genes (ND2, AK1, BFib, ND4, ODC, Musk)
with 4425 bp and 59 species.
Muchas gracias!
--
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Alexandros (Alexis) Stamatakis
Research Group Leader, Heidelberg Institute for Theoretical Studies
Full Professor, Dept. of Informatics, Karlsruhe Institute of Technology
Adjunct Professor, Dept. of Ecology and Evolutionary Biology, University
of Arizona at Tucson
www.exelixis-lab.org
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Alexandros Stamatakis
Mar 31, 2017, 4:17:28 PM3/31/17
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Dear Marialejandra,
> Hola Alex! thanks for answering! I am using the version available on
> your website: stand-alone GUI. I am using the windows version.
I see, we do not maintain this version any longer, so I am afraid we
will not be able to help you with this (the student who implemented this
left the group about 6 years ago).
My suggestions would be that you use the command line version of RAxML
for doing your analyses.
Alexis
>
>
> 2017-03-30 15:40 GMT-04:00 Alexandros Stamatakis
> <alexandros...@gmail.com <mailto:alexandros...@gmail.com>>:
> an email to raxml+un...@googlegroups.com
> <mailto:raxml%2Bunsu...@googlegroups.com>
> <mailto:raxml+un...@googlegroups.com
> <mailto:raxml%2Bunsu...@googlegroups.com>>.
> <mailto:raxml%2Bunsu...@googlegroups.com>.
> <mailto:raxml+un...@googlegroups.com>.
> Hola Alex! thanks for answering! I am using the version available on
> your website: stand-alone GUI. I am using the windows version.
will not be able to help you with this (the student who implemented this
left the group about 6 years ago).
My suggestions would be that you use the command line version of RAxML
for doing your analyses.
Alexis
>
>
> 2017-03-30 15:40 GMT-04:00 Alexandros Stamatakis
> <mailto:raxml%2Bunsu...@googlegroups.com>
> <mailto:raxml+un...@googlegroups.com
> <mailto:raxml%2Bunsu...@googlegroups.com>>.
> For more options, visit https://groups.google.com/d/optout
> <https://groups.google.com/d/optout>.
>
>
> --
> Alexandros (Alexis) Stamatakis
>
> Research Group Leader, Heidelberg Institute for Theoretical Studies
> Full Professor, Dept. of Informatics, Karlsruhe Institute of Technology
> Adjunct Professor, Dept. of Ecology and Evolutionary Biology, University
> of Arizona at Tucson
>
> www.exelixis-lab.org <http://www.exelixis-lab.org>
>
> --
> Alexandros (Alexis) Stamatakis
>
> Research Group Leader, Heidelberg Institute for Theoretical Studies
> Full Professor, Dept. of Informatics, Karlsruhe Institute of Technology
> Adjunct Professor, Dept. of Ecology and Evolutionary Biology, University
> of Arizona at Tucson
>
>
>
> --
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