optimizeModel.c:123: setRateModel: Assertion `rate >= 0.0001 && rate <= 1000000.0' failed.

[idavydov]

Hi,
I'm having the issue with RAxML 8.2.9 (the latest stable version I assume).
I run the following code:

~/raxml/standard-RAxML-8.2.9/raxmlHPC-AVX -m GTRGAMMA -s 833.flt.fasta -n tree -N 20 -p 1

on the moderately small dataset. And I get the following problem:

Inference[0]: Time 0.061822 GAMMA-based likelihood -404.902950, best rearrangement setting 5
Inference[1]: Time 0.043446 GAMMA-based likelihood -404.906780, best rearrangement setting 5
Inference[2]: Time 0.053795 GAMMA-based likelihood -404.912474, best rearrangement setting 5
Inference[3]: Time 0.042010 GAMMA-based likelihood -404.904657, best rearrangement setting 5
Inference[4]: Time 0.033845 GAMMA-based likelihood -404.905038, best rearrangement setting 5
Inference[5]: Time 0.050149 GAMMA-based likelihood -405.409797, best rearrangement setting 5
Inference[6]: Time 0.049108 GAMMA-based likelihood -404.922288, best rearrangement setting 5
Inference[7]: Time 0.034839 GAMMA-based likelihood -404.903627, best rearrangement setting 5
Inference[8]: Time 0.035779 GAMMA-based likelihood -404.905431, best rearrangement setting 5
Inference[9]: Time 0.034291 GAMMA-based likelihood -404.905282, best rearrangement setting 5
Inference[10]: Time 0.050510 GAMMA-based likelihood -404.942362, best rearrangement setting 5
Inference[11]: Time 0.061640 GAMMA-based likelihood -404.905881, best rearrangement setting 5
Inference[12]: Time 0.064153 GAMMA-based likelihood -404.904110, best rearrangement setting 5
Inference[13]: Time 0.049692 GAMMA-based likelihood -404.903790, best rearrangement setting 5
raxmlHPC-AVX: optimizeModel.c:123: setRateModel: Assertion `rate >= 0.0001 && rate <= 1000000.0' failed.
Aborted (core dumped)

Interestingly, this is not reproduced in the latest git version. Is the git-master stable enough to use it? If so, could you please make a release?

Thanks, Iakov

File: 833.flt.fasta.txt

Platform: Ubuntu Linux 16.04.2 LTS, 64bit

[stamatak]

Thanks for pointing this ou, the git-master is stable enough, I'll make a new tagged release soon, alexis

…

On 08.03.2017 14:51, Iakov Davydov wrote: Hi, I'm having the issue with RAxML 8.2.9 (the latest stable version I assume). I run the following code: |~/raxml/standard-RAxML-8.2.9/raxmlHPC-AVX -m GTRGAMMA -s 833.flt.fasta -n tree -N 20 -p 1 | on the moderately small dataset. And I get the following problem: |Inference[0]: Time 0.061822 GAMMA-based likelihood -404.902950, best rearrangement setting 5 Inference[1]: Time 0.043446 GAMMA-based likelihood -404.906780, best rearrangement setting 5 Inference[2]: Time 0.053795 GAMMA-based likelihood -404.912474, best rearrangement setting 5 Inference[3]: Time 0.042010 GAMMA-based likelihood -404.904657, best rearrangement setting 5 Inference[4]: Time 0.033845 GAMMA-based likelihood -404.905038, best rearrangement setting 5 Inference[5]: Time 0.050149 GAMMA-based likelihood -405.409797, best rearrangement setting 5 Inference[6]: Time 0.049108 GAMMA-based likelihood -404.922288, best rearrangement setting 5 Inference[7]: Time 0.034839 GAMMA-based likelihood -404.903627, best rearrangement setting 5 Inference[8]: Time 0.035779 GAMMA-based likelihood -404.905431, best rearrangement setting 5 Inference[9]: Time 0.034291 GAMMA-based likelihood -404.905282, best rearrangement setting 5 Inference[10]: Time 0.050510 GAMMA-based likelihood -404.942362, best rearrangement setting 5 Inference[11]: Time 0.061640 GAMMA-based likelihood -404.905881, best rearrangement setting 5 Inference[12]: Time 0.064153 GAMMA-based likelihood -404.904110, best rearrangement setting 5 Inference[13]: Time 0.049692 GAMMA-based likelihood -404.903790, best rearrangement setting 5 raxmlHPC-AVX: optimizeModel.c:123: setRateModel: Assertion `rate >= 0.0001 && rate <= 1000000.0' failed. Aborted (core dumped) | Interestingly, this is not reproduced in the latest git version. Is the git-master stable enough to use it? If so, could you please make a release? Thanks, Iakov File: 833.flt.fasta.txt <https://github.com/stamatak/standard-RAxML/files/827761/833.flt.fasta.txt> Platform: Ubuntu Linux 16.04.2 LTS, 64bit — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#42>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AA1w-p1O4QyLm-eLtku3jYnpwDc2iSWsks5rjrJogaJpZM4MWzeV>.

-- 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

[stamatak]

just created a new tagged release v8.2.10

alexis