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  • Committer: Package Import Robot
  • Author(s): Andreas Tille
  • Date: 2012-06-22 10:03:24 UTC
  • mfrom: (1.1.3)
  • Revision ID: package-import@ubuntu.com-20120622100324-v9e98arr9zjtmitl
Tags: 1:0.1.0+20110714-1
* New upstream version
* debian/control:
   - Standards-Version: 3.9.3 (no changes needed)
   - debhelper version 9
   - Adapted versioned (build-)depends to latest emboss version
* added debian/compat: 9
* debian/source/format: 3.0 (quilt)
* debian/rules: short dh
* debian/copyright: DEP5 fixes

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emboss_acd/seqsort.acd
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application: seqsort [
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  documentation: "Remove ambiguous classified sequences from
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                  DHF files."
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  groups: "Protein:3D Structure"
 
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  groups: "Protein:Domains"
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  gui: "yes"
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  batch: "yes"
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  cpu: "medium"
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  embassy: "domsearch"
 
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  relations: "EDAM:0000736 topic Protein domains"
 
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  relations: "EDAM:0002121 operation Sequence file processing"
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]
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section: input [
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    default: "./"
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    extension: "dhf"
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    knowntype: "domain hits"
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    relations:  "EDAM: EMBASSY domain hits report"                     
 
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    relations:  "EDAM:0001049 identifier Directory name"
 
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    relations: "EDAM:0000849 data Sequence record"
 
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    relations: "EDAM:0001219 format pure protein"
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  ]
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endsection: input
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           replaced by a hit that is produced from merging the two
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           overlapping hits."
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    default: "10"
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    relations: "EDAM: Generic integer"                                     
 
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    relations: "EDAM:0001249 data Sequence length"
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  ]
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  toggle: dofamilies [
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    help: "This option specifies to write a domain families file. If
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           this option is set a domain families file is written."
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    default: "N"
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    relations: "EDAM: Generic boolean"                                     
 
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    relations: "EDAM:0002527 data Parameter or primitive"
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  ]
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  toggle: doambiguities [
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           file. If this option is set a domain ambiguities file is
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           written."
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    default: "N"
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    relations: "EDAM: Generic boolean"                                     
 
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    relations: "EDAM:0002527 data Parameter or primitive"
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  ]
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endsection: required
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    default: "./"
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    extension: "dhf"
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    knowntype: "domain hits"
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    relations:  "EDAM: EMBASSY domain hits report"                     
 
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    relations:  "EDAM:0001049 identifier Directory name"
 
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    relations: "EDAM:0000849 data Sequence record"
 
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    relations: "EDAM:0001219 format pure protein"
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  ]
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  outfile: hitsfile [
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    knowntype: "Domain hits"
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    default: "fam.dhf"
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    nullok: "Y"
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    relations: "EDAM: Free text file"                                      
 
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    relations:  "EDAM:0001049 identifier Directory name"
 
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    relations: "EDAM:0000849 data Sequence record"
 
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    relations: "EDAM:0001219 format pure protein"
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  ]
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  outfile: ambigfile [
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    knowntype: "domain ambiguities"
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    default: "oth.dhf"
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    nullok: "Y"
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    relations:  "EDAM: EMBASSY domain hits report"                     
 
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    relations: "EDAM:0001049 identifier Directory name"
 
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    relations: "EDAM:0000849 data Sequence record"
 
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    relations: "EDAM:0001219 format pure protein"
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  ]
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endsection: output