Mercurial > repos > brinkmanlab > microbedb

comparison all_fasta.sql @ 0:40d14d5c8125 draft

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"planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/microbedb commit e63162a36457c0337c67e536a8a394beb06f4d70"
author brinkmanlab
date Fri, 30 Oct 2020 21:04:47 +0000
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children b7884a377566
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-1:000000000000 0:40d14d5c8125
1 SELECT json_group_array(json_object('value', unique_build_id, 'dbkey', dbkey, 'name', label, 'path', file_path))
2 FROM (
3 SELECT (r.rep_accnum || '.' || r.rep_version) AS unique_build_id,
4 (r.rep_accnum || '_' || r.rep_version) AS dbkey,
5 (REPLACE(r.definition, ', complete genome.', '') || ' [' || r.rep_accnum || '.' || r.rep_version ||
6 ']') AS label,
7 (:basepath || '/' || genomeproject.gpv_directory || '/' || genomeproject.filename || '_genomic.fna') AS file_path
8 FROM genomeproject
9 JOIN replicon r ON genomeproject.gpv_id = r.gpv_id AND r.rep_type = 'chromosome'
10 WHERE genomeproject.version_id = (SELECT version_id FROM version WHERE is_current == 1)
11 AND genomeproject.file_types IS NOT NULL
12 AND genomeproject.file_types LIKE '%.fna%'
13 AND r.rep_type = 'chromosome'
14 )