ddarriba / jmodeltest2

Automatically exported from code.google.com/p/jmodeltest2
GNU General Public License v3.0
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can not use it #11

Closed GoogleCodeExporter closed 9 years ago

GoogleCodeExporter commented 9 years ago
thanks 
It is quite strange, every time  i try to open jmodeltest2 under 
java1.6.0_26_b03_384 and load sequences, after that i try to analysis, it is 
quickly closed! what's the problem?
there is what i got from terminal

Tue Aug 21 12:18:39 CEST 2012
Mac OS X 10.5.8, arch: x86_64, bits: 64, numcores: 8 

--------------------------------------------------------------------------------
Citation: Darriba D, Taboada GL, Doallo R and Posada D. 2012.
          "jModelTest 2: more models, new heuristics and parallel computing".
          Nature Methods 9, 772.
--------------------------------------------------------------------------------

jModelTest 2.1.1
Copyright (C) 2011 D. Darriba, G.L. Taboada, R. Doallo and D. Posada
This program comes with ABSOLUTELY NO WARRANTY
This is free software, and you are welcome to redistribute it under certain 
conditions

Notice: This program may contain errors. Please inspect results carefully.

Arguments = -d example-data/aP6.fas -g 4 -i -f -AIC -BIC -a

Reading data file "aP6.fas"... OK.
  number of sequences: 6
  number of sites: 631
  ambiguity : false

Settings::

 Phyml version = 3.0
 Phyml binary = PhyML_3.0_macOS_i386
 Candidate models = 24
   number of substitution schemes = 3
   including models with equal/unequal base frequencies (+F)
   including models with/without a proportion of invariable sites (+I)
   including models with/without rate variation among sites (+G) (nCat = 4)
 Optimized free parameters (K) = substitution parameters + 9 branch lengths + topology 
 Base tree for likelihood calculations = ML tree
 Tree topology search operation = BEST

::Progress::

Model        Exec. Time      Total Time      -lnL
-------------------------------------------------------------------------
ERROR>dyld: unknown required load command 0x80000022
ERROR>dyld: unknown required load command 0x80000022
ERROR>dyld: unknown required load command 0x80000022

Computation of likelihood scores discontinued ...
Optimization results file does not exist: 
/var/folders/BR/BRdwq5SNGVywJiLK2kAHV++++TM/-Tmp-/jmodeltest9044392534325094443.
phy_phyml_stats_HKY+G.txt

Computation of likelihood scores discontinued ...

Computation of likelihood scores discontinued ...
Optimization results file does not exist: 
/var/folders/BR/BRdwq5SNGVywJiLK2kAHV++++TM/-Tmp-/jmodeltest9044392534325094443.
phy_phyml_stats_F81+G.txt

Computation of likelihood scores discontinued ...
Optimization results file does not exist: 
/var/folders/BR/BRdwq5SNGVywJiLK2kAHV++++TM/-Tmp-/jmodeltest9044392534325094443.
phy_phyml_stats_GTR+I+G.txt

Computation of likelihood scores discontinued ...

Original issue reported on code.google.com by Quinn775...@gmail.com on 21 Aug 2012 at 11:34

GoogleCodeExporter commented 9 years ago
We were not able to reproduce this bug yet, but  it seems to be a problem with 
OSX 10.5. Other users solved this problem just upgrading to OSX 10.6.

Original comment by DiegoDL84 on 17 Dec 2012 at 3:04

GoogleCodeExporter commented 9 years ago
This was a problem with paths using whitespaces. It was fixed.

Original comment by DiegoDL84 on 11 Feb 2013 at 2:30