ERROR Line 2: More supplies than defined in the header

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Juan Diego Ariza López

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Feb 28, 2021, 8:37:40 PMFeb 28
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Hi guys i have a problem, i hope you can help. thank u 


C:\Users\home\Anaconda>python "C:\Users\home\Desktop\Sis molecular\partition\partitionfinder-2.1.1\PartitionFinder.py" "C:\Users\home\Desktop\Sis molecular\partition\partitionfinder-2.1.1\examples\nucleotide - alouatta"
INFO     | 2021-02-27 20:51:00,094 | ------------- PartitionFinder 2.1.1 -----------------
INFO     | 2021-02-27 20:51:00,094 | You have Python version 2.7
INFO     | 2021-02-27 20:51:00,094 | Command-line arguments used: C:\Users\home\Desktop\Sis molecular\partition\partitionfinder-2.1.1\PartitionFinder.py C:\Users\home\Desktop\Sis molecular\partition\partitionfinder-2.1.1\examples\nucleotide - alouatta
INFO     | 2021-02-27 20:51:00,095 | ------------- Configuring Parameters -------------
INFO     | 2021-02-27 20:51:00,095 | Setting datatype to 'DNA'
INFO     | 2021-02-27 20:51:00,095 | Setting phylogeny program to 'phyml'
INFO     | 2021-02-27 20:51:00,095 | Program path is here C:\Users\home\Desktop\Sis molecular\partition\partitionfinder-2.1.1\programs
INFO     | 2021-02-27 20:51:00,098 | Setting working folder to: 'C:\Users\home\Desktop\Sis molecular\partition\partitionfinder-2.1.1\examples\nucleotide - alouatta'
INFO     | 2021-02-27 20:51:00,099 | Loading configuration at '.\partition_finder.cfg'
INFO     | 2021-02-27 20:51:00,105 | Setting 'alignment' to 'falouatta.phy'
INFO     | 2021-02-27 20:51:00,107 | Setting 'branchlengths' to 'linked'
INFO     | 2021-02-27 20:51:00,108 | You set 'models' to: GTR, GTR+G, GTR+I+G
C:\Users\home\Anaconda\lib\site-packages\pandas\computation\ops.py:62: DeprecationWarning: object() takes no parameters
  return supr_new(klass, name, env, side=side, encoding=encoding)
C:\Users\home\Anaconda\lib\site-packages\pandas\computation\ops.py:62: DeprecationWarning: object() takes no parameters
  return supr_new(klass, name, env, side=side, encoding=encoding)
C:\Users\home\Anaconda\lib\site-packages\pandas\computation\ops.py:62: DeprecationWarning: object() takes no parameters
  return supr_new(klass, name, env, side=side, encoding=encoding)
C:\Users\home\Anaconda\lib\site-packages\pandas\computation\ops.py:62: DeprecationWarning: object() takes no parameters
  return supr_new(klass, name, env, side=side, encoding=encoding)
INFO     | 2021-02-27 20:51:00,125 | This analysis will use the following 3 models of molecular evolution
INFO     | 2021-02-27 20:51:00,125 | GTR, GTR+G, GTR+I+G
INFO     | 2021-02-27 20:51:00,127 | Setting 'model_selection' to 'aicc'
INFO     | 2021-02-27 20:51:00,134 | Setting 'search' to 'greedy'
INFO     | 2021-02-27 20:51:00,137 | ------------------------ BEGINNING NEW RUN -------------------------------
INFO     | 2021-02-27 20:51:00,138 | Looking for alignment file '.\falouatta.phy'...
INFO     | 2021-02-27 20:51:00,138 | Using 4 cpus
INFO     | 2021-02-27 20:51:00,141 | Beginning Analysis
INFO     | 2021-02-27 20:51:00,177 | Reading alignment file '.\falouatta.phy'
ERROR    | 2021-02-27 20:51:00,178 | Line 2: More supplied than defined in the header
ERROR    | 2021-02-27 20:51:00,183 | Failed to run. See previous errors.

i dont know what is the problem, i tried everything :(

Rob Lanfear

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Feb 28, 2021, 8:39:12 PMFeb 28
to PartitionFinder
Hi there,

Can you post a copy of your alignment? It looks to me like the number of sites or species you define in the alignment header doesn't match what's actually in the alignment itself.

Rob

Juan Diego Ariza López

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Feb 28, 2021, 9:37:33 PMFeb 28
to partiti...@googlegroups.com
of course bro, this is my alignment,

thank u so much

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fragmento alouatta.txt
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