diff libs/sratoolkit.2.8.0-centos_linux64/schema/align/qstat.vschema @ 3:38ad1130d077 draft

planemo upload commit a4fb57231f274270afbfebd47f67df05babffa4a-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/libs/sratoolkit.2.8.0-centos_linux64/schema/align/qstat.vschema	Mon Nov 27 11:21:07 2017 -0500
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+/*===========================================================================
+*
+*                            PUBLIC DOMAIN NOTICE
+*               National Center for Biotechnology Information
+*
+*  This software/database is a "United States Government Work" under the
+*  terms of the United States Copyright Act.  It was written as part of
+*  the author's official duties as a United States Government employee and
+*  thus cannot be copyrighted.  This software/database is freely available
+*  to the public for use. The National Library of Medicine and the U.S.
+*  Government have not placed any restriction on its use or reproduction.
+*
+*  Although all reasonable efforts have been taken to ensure the accuracy
+*  and reliability of the software and data, the NLM and the U.S.
+*  Government do not and cannot warrant the performance or results that
+*  may be obtained by using this software or data. The NLM and the U.S.
+*  Government disclaim all warranties, express or implied, including
+*  warranties of performance, merchantability or fitness for any particular
+*  purpose.
+*
+*  Please cite the author in any work or product based on this material.
+*
+* ===========================================================================
+*
+*/
+
+/*==========================================================================
+ * VDB Quality Statistics Table
+ */
+version 1;
+
+include 'vdb/vdb.vschema';
+include 'ncbi/ncbi.vschema';
+
+table NCBI:align:tbl:qstat #1.0
+{
+    /* SPOT_GROUP
+     */
+    extern column < ascii > zip_encoding SPOT_GROUP;
+
+    /* CYCLE
+     *  machine cycle
+     */
+    extern column < U32 > izip_encoding CYCLE;
+
+    /* KMER
+     *  use dimer
+     */
+    extern column INSDC:dna:text KMER;
+
+    /* HPRUN
+     *  homopolymer run
+     *  number of bases of the same type preceding the current base
+     */
+    extern column < INSDC:coord:len > izip_encoding HPRUN;
+
+    /* GC_CONTENT
+     *  number of G's or C's in the 7 bases preceding the current base
+     */
+    extern column < U32 > izip_encoding GC_CONTENT;
+
+    /* ORIG_QUAL
+     *  original quality scores
+     */
+    extern column < INSDC:quality:phred > zip_encoding ORIG_QUAL;
+
+    /* MAX_QUAL
+     *  max. quality score in read
+     */
+    extern column < INSDC:quality:phred > zip_encoding MAX_QUAL;
+
+    /* NREAD
+     *  number of the read
+     */
+    extern column < U8 > zip_encoding NREAD;
+
+    /* TOTAL_COUNT
+     *  total count of observed events
+     */
+    extern column < U32 > izip_encoding TOTAL_COUNT;
+
+    /* MISMATCH_COUNT
+     *  count of observed mismatches
+     */
+    extern column < U32 > izip_encoding MISMATCH_COUNT;
+
+};