Provided by: emboss_6.6.0+dfsg-7_amd64 bug

NAME

       wossoperation - Finds programs by EDAM operation

SYNOPSIS

       wossoperation -identifier string [-explode boolean] [-showkeywords boolean]
                     -sensitive boolean -subclasses boolean -obsolete boolean -emboss boolean
                     -embassy boolean -showembassy string -colon boolean -gui boolean
                     [-outfile outfile] [-html toggle] [-groups boolean] [-alphabetic boolean]

       wossoperation -help

DESCRIPTION

       wossoperation is a command line program from EMBOSS (“the European Molecular Biology Open
       Software Suite”). It is part of the "Ontology:EDAM,Documentation" command group(s).

OPTIONS

   Input section
       -identifier string

   Additional section
       -explode boolean
           The groups that EMBOSS applications belong to have two forms, exploded and not
           exploded. The exploded group names are more numerous and often vaguely phrased than
           the non-exploded ones. The exploded names are formed from definitions of the group
           names that start like NAME1:NAME2 and which are then expanded into many combinations
           of the names as: 'NAME1', 'NAME2', 'NAME1 NAME2', NAME2 NAME1'. The non-expanded names
           are simply like: 'NAME1 NAME2'. Default value: N

       -showkeywords boolean
           Default value: N

   Advanced section
       -sensitive boolean
           By default, the query keywords are matched against the EDAM term names (and synonyms)
           only. This option also matches the keywords against the EDAM term definitions and will
           therefore (typically) report more matches. Default value: N

       -subclasses boolean
           Extend the query matches to include all terms which are specialisations (EDAM
           sub-classes) of the matched type. Default value: Y

       -obsolete boolean
           The default behaviour is to not use or return obsolete terms. This option if set will
           include all terms. Default value: N

       -emboss boolean
           If you use this option then EMBOSS program documentation will be searched. If this
           option is set to be false, then only the EMBASSY programs will be searched (if the
           -embassy option is true). EMBASSY programs are not strictly part of EMBOSS, but use
           the same code libraries and share the same look and feel, but are generally developed
           by people who wish the programs to be outside of the GNU General Public License scheme
           Default value: Y

       -embassy boolean
           If you use this option then EMBASSY program documentation will be searched. If this
           option is set to be false, then only the EMBOSS programs will be searched (if the
           -emboss option is true). EMBASSY programs are not strictly part of EMBOSS, but use the
           same code libraries and share the same look and feel, but are generally developed by
           people who wish the programs to be outside of the GNU General Public License scheme
           Default value: Y

       -showembassy string
           If you use this option then this EMBASSY package program documentation will be
           searched. EMBASSY programs are not strictly part of EMBOSS, but use the same code
           libraries and share the same look and feel, but are generally developed by people who
           wish the programs to be outside of the GNU General Public License scheme

       -colon boolean
           The groups that EMBOSS applications belong to up to two levels, for example the
           primary group 'ALIGNMENT' has several sub-groups, or second-level groups, e.g.:
           CONSENSUS, DIFFERENCES, DOT PLOTS, GLOBAL, LOCAL, MULTIPLE. To aid programs that parse
           the output of wossname that require the names of these subgroups, a colon ':' will be
           placed between the first and second level of the group name if this option is true.
           Note: This does not apply if the group names have been exploded with the 'explode'
           option. Default value: N

       -gui boolean
           This option is intended to help those who are designing Graphical User Interfaces to
           the EMBOSS applications. Some EMBOSS programs are inappropriate for running in a GUI,
           these include other menu programs and interactive editors. This option allows you to
           only report those programs that can be run from a GUI Default value: N

   Output section
       -outfile outfile
           Default value: stdout

   Html section
       -html toggle
           If you are sending the output to a file, this will format it for displaying as a table
           in a WWW document. Default value: N

       -groups boolean
           If you use this option, then only the group names will be output to the file Default
           value: N

       -alphabetic boolean
           If you use this option, then you will get a single list of the program names and
           descriptions instead of the programs being listed in their functional groups. Default
           value: N

BUGS

       Bugs can be reported to the Debian Bug Tracking system (http://bugs.debian.org/emboss), or
       directly to the EMBOSS developers
       (http://sourceforge.net/tracker/?group_id=93650&atid=605031).

SEE ALSO

       wossoperation is fully documented via the tfm(1) system.

AUTHOR

       Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
           Wrote the script used to autogenerate this manual page.

COPYRIGHT

       This manual page was autogenerated from an Ajax Control Definition of the EMBOSS package.
       It can be redistributed under the same terms as EMBOSS itself.