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annotate libs/sratoolkit.2.8.0-centos_linux64/schema/sra/nanopore.vschema @ 3:38ad1130d077 draft

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author charles_s_test
date Mon, 27 Nov 2017 11:21:07 -0500
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1 /*===========================================================================
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2 *
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3 * PUBLIC DOMAIN NOTICE
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4 * National Center for Biotechnology Information
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5 *
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6 * This software/database is a "United States Government Work" under the
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7 * terms of the United States Copyright Act. It was written as part of
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8 * the author's official duties as a United States Government employee and
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9 * thus cannot be copyrighted. This software/database is freely available
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10 * to the public for use. The National Library of Medicine and the U.S.
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11 * Government have not placed any restriction on its use or reproduction.
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12 *
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13 * Although all reasonable efforts have been taken to ensure the accuracy
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14 * and reliability of the software and data, the NLM and the U.S.
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15 * Government do not and cannot warrant the performance or results that
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16 * may be obtained by using this software or data. The NLM and the U.S.
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17 * Government disclaim all warranties, express or implied, including
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18 * warranties of performance, merchantability or fitness for any particular
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19 * purpose.
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20 *
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21 * Please cite the author in any work or product based on this material.
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22 *
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23 * ===========================================================================
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24 *
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25 */
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26
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27 /*==========================================================================
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28 * NCBI Oxford Nanopore Sequence Read Archive schema
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29 */
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30 version 1;
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31
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32 include 'insdc/sra.vschema';
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33 include 'ncbi/sra.vschema';
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34
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35
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36 /*--------------------------------------------------------------------------
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37 * NCBI:SRA:Nanopore:consensus
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38 * Oxford Nanopore SRA Platform
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39 */
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40 table NCBI:SRA:Nanopore:consensus #1
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41 = NCBI:SRA:tbl:sra #2.1.3
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42 , NCBI:tbl:base_space #2.0.3
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43 , NCBI:tbl:phred_quality #2.0.3
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44 {
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45 extern column < U32 > izip_encoding #1 CHANNEL;
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46
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47 extern column < U32 > izip_encoding #1 READ_NUMBER;
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48
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49 extern column bool_encoding #1 HIGH_QUALITY;
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50
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51 ascii platform_name
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52 = < ascii > echo < "OXFORD_NANOPORE" > ();
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53
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54 INSDC:SRA:platform_id out_platform
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55 = < INSDC:SRA:platform_id > echo < SRA_PLATFORM_OXFORD_NANOPORE > ();
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56 }
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57
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58
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59 /*--------------------------------------------------------------------------
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60 * NCBI:SRA:Nanopore:sequence
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61 * Oxford Nanopore SRA Platform
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62 */
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63 table NCBI:SRA:Nanopore:sequence #1
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64 = NCBI:SRA:tbl:sra #2.1.3
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65 , NCBI:tbl:base_space #2.0.3
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66 , NCBI:tbl:phred_quality #2.0.3
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67 {
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68 extern column < U32 > izip_encoding #1 CHANNEL;
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69
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70 extern column < U32 > izip_encoding #1 READ_NUMBER;
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71
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72 ascii platform_name
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73 = < ascii > echo < "OXFORD_NANOPORE" > ();
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74
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75 INSDC:SRA:platform_id out_platform
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76 = < INSDC:SRA:platform_id > echo < SRA_PLATFORM_OXFORD_NANOPORE > ();
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77 }
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78
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79
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80 database NCBI:SRA:Nanopore:db #1
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81 {
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82 table NCBI:SRA:Nanopore:sequence #1.0 SEQUENCE;
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83 table NCBI:SRA:Nanopore:consensus #1.0 CONSENSUS;
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84 };