[Bioperl-pipeline] phylip_tree_pipeline

[Ruiz Manuel]

  Hi,
 
  I'm trying to run the program phylip_tree_pipeline  with my multifasta
  file.......
  Clustal run correctly and create a file.cls in resultdir but the SeqBoot
  program fail
 
  ------------- EXCEPTION  -------------
  MSG: Problems running runnableDB for
  [
  ------------- EXCEPTION  -------------
  MSG: Problems running Phylip program SeqBoot:
  ------------- EXCEPTION  -------------
  MSG: SeqBoot did not create files correctly (/tmp/eBqU06druL/outfile)
  STACK Bio::Tools::Run::Phylo::Phylip::SeqBoot::_run
  
/usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Tools/Run/Phylo/Phylip/Se
 qBoot.pm:361 STACK Bio::Tools::Run::Phylo::Phylip::SeqBoot::run
  
/usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Tools/Run/Phylo/Phylip/Se
 qBoot.pm:311 STACK (eval)
  
/usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/Runnable/Phylip.
 pm:178 STACK Bio::Pipeline::Runnable::Phylip::run
  
/usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/Runnable/Phylip.
 pm:177 STACK Bio::Pipeline::RunnableDB::run
  
/usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/RunnableDB.pm:35
 1 STACK (eval)
  /usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/Job.pm:306
  STACK Bio::Pipeline::Job::run
  /usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/Job.pm:304
  STACK Bio::Pipeline::Manager::run
  
/usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/Manager.pm:331
  STACK toplevel PipelineManager:152
 
  --------------------------------------
 
  STACK Bio::Pipeline::Runnable::Phylip::run
  
/usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/Runnable/Phylip.
 pm:180 STACK Bio::Pipeline::RunnableDB::run
  
/usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/RunnableDB.pm:35
 1 STACK (eval)
  /usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/Job.pm:306
  STACK Bio::Pipeline::Job::run
  /usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/Job.pm:304
  STACK Bio::Pipeline::Manager::run
  
/usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/Manager.pm:331
  STACK toplevel PipelineManager:152
 
  --------------------------------------
  ]
 
  STACK Bio::Pipeline::Job::run
  /usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/Job.pm:311
  STACK Bio::Pipeline::Manager::run
  
/usr/local/ActivePerl-5.8/lib/site_perl/5.8.0/Bio/Pipeline/Manager.pm:331
  STACK toplevel PipelineManager:152
 
  --------------------------------------
 
  I use phylip3.5/seqboot version....It's ok?!


 
 
-- 
Manuel Ruiz

Equipe Génomique et Bio-informatique
CIRAD-Biotrop
TA40/03
Avenue Agropolis
34398 Montpellier Cedex 5
France

Tel : (33) 4 67 61 56 31
Fax : (33) 4 67 61 56 05
e-mail: manuel.ruiz at cirad.fr