LogolMultiExec - Program to parse a logol grammar and search pattern in a sequence, it allows one to run

       Olivier Sallou (olivier.sallou (at) irisa.fr)

version 1.0                                    September 28, 2011                              LogolMultiExec(1)

        LogolMultiExec and LogolExec share the same configuration file. See LogolExec man page for more info.
        .PP

        LogolMultiExec needs the drmaa library. Default is to use SGE library. If another is used,
        one should update the symbolic link in  /usr/share/logol/lib/drmaa.jar to the correct library.
        LD_LIBRARY_PATH must also updated in /sur/share/logol/LogolMultiExec.sh

       LogolMultiExec  - Program to parse a logol grammar and search pattern in a sequence, it allows one to run
       the LogolExec program on multi fasta input and to dispatch the treatements
        on a DRMAA compliant grid or on multi-cpu servers.

        Minimum arguments are -m for logol model or -g for logol grammar, and -s for input sequence

   MAINOPTIONS
       -h
               display the list of commands.

       -v
               get version

       -conf
               specify configuration file

       -s
               sequence file to analyse.

       -g
               grammar file to analyse

       -m
               model file to analyse

       -dna
               analyse dna, is default

       -rna
               analyse rna

       -protein
               analyse protein

       -max
                maximum returned solutions

       -all
               analyse both directions of the sequence

       -out
               Zip output file name

       -fasta
               Add fasta conversion of the matches to the result archive

       -contig
               Set the input bank as contig sequences

       -guid
               Unique identifier for the query

       -email
               Email address to sent result availability info
               (needs mail setup)

       -local
               Use local mode (multi core)

       -sge
               Use SGE mode

       -forcesplit
               Force the sequence splitting according to parameters and whatever is the number of model used  in
              grammar

   OTHEROPTIONS
       -lmax
               maximum length of a variable

       -maxspacer
               maximum size of a spacer

       -noclean
               Do not delete created files after treatment (for debug)

       -enabledups
               enable duplicate result matches. By default only keep singletons

       -filter
               Type     of     filter     when    enabledups    is    not    enabled.    Allowed    types    are
              exact(default),local,local0,global.

       -lmin
               minimum length of a variable (to speedup parsing)

       -maxmatchsize
               maximum size of a match (to speedup parsing)

       -maxres
               maximum result size of a match  (to speedup parsing)

LogolMultiExec [-h]