[Bioperl-pipeline] phylip_tree_pipeline
Ruiz Manuel
manuel.ruiz at cirad.fr
Mon Dec 8 03:58:00 EST 2003
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
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