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  • Committer: Package Import Robot
  • Author(s): Steffen Moeller
  • Date: 2011-11-02 13:29:07 UTC
  • mfrom: (1.2.1) (3.1.11 natty)
  • Revision ID: package-import@ubuntu.com-20111102132907-o34gwnt0uj5g6hen
Tags: 1.9.8+repack-1
* First release to Debian
  - added README.Debian
  - increased policy version to 3.9.2
  - added URLs for version control system
* Added debug package.

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data/cmdline/fetch.uwl
 
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#!UGENE_WORKFLOW
 
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#Fetches sequences from remote database. The supported databases are accesed via alias.
 
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#
 
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#Database               Alias
 
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#--------               -----
 
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#NCBI Genbank (DNA)     genbank
 
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#NCBI Genbank (protein) genbank-protein
 
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#Protein Data Bank      pdb
 
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#SwissProt              swissprot
 
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#Uniprot                        uniprot
 
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#
 
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workflow fetch{
 
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    fetch-sequence {
 
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        type:fetch-sequence;
 
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        name:"Read from remote database";
 
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        database:"NCBI GenBank (DNA sequence)";
 
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        save-dir:.;
 
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    }
 
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    .meta {
 
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        aliases {
 
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            fetch-sequence.database:db;
 
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            fetch-sequence.resource-id:id;
 
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            fetch-sequence.save-dir:save-dir;
 
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        }
 
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        help {
 
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            db:"Database alias";
 
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            id:"Resource ID in the database. Several IDs can be separated with semicolon";
 
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            save-dir:"Directory to store loaded sequences";
 
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        }
 
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        visual {
 
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            fetch-sequence {
 
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                description:"<!DOCTYPE HTML PUBLIC '-//W3C//DTD HTML 4.0//EN' 'http://www.w3.org/TR/REC-html40/strict.dtd'> <html><head><meta name='qrichtext' content='1' /><style type='text/css'> p, li { white-space: pre-wrap; } </style></head><body style=' font-family:'MS Shell Dlg 2'; font-size:8.25pt; font-weight:400; font-style:normal;'> <p align='center' style=' margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px;'><span style=' font-weight:600;'>Read from remote database</span></p> <hr /> <p style=' margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px;'>Reads sequence identified with <span style=' color:#ff0000;'>unset</span> from <span style=' text-decoration: underline;'>NCBI GenBank (DNA sequence)</span> remote database. Save result to <span style=' text-decoration: underline;'>.</span> directory</p></body></html>";
 
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                tooltip:"Reads sequences and annotations if any from a remote database.";
 
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                pos:"-420 -375";
 
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                style:ext;
 
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                bg-color-ext:"0 128 128 64";
 
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                out-sequence.angle:360;
 
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            }
 
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        }
 
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    }
 
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}
 
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