reset.cwl

 1#!/usr/bin/env cwl-runner
 2### Generic Table (View/Materialized View) Initializer
 3#  Copyright (c) 2021. Harvard University
 4#
 5#  Developed by Research Software Engineering,
 6#  Faculty of Arts and Sciences, Research Computing (FAS RC)
 7#  Author: Michael A Bouzinier
 8#
 9#  Licensed under the Apache License, Version 2.0 (the "License");
10#  you may not use this file except in compliance with the License.
11#  You may obtain a copy of the License at
12#
13#         http://www.apache.org/licenses/LICENSE-2.0
14#
15#  Unless required by applicable law or agreed to in writing, software
16#  distributed under the License is distributed on an "AS IS" BASIS,
17#  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
18#  See the License for the specific language governing permissions and
19#  limitations under the License.
20#
21
22cwlVersion: v1.2
23class: CommandLineTool
24baseCommand: [python, -m, dorieh.platform.loader.data_loader]
25requirements:
26  InlineJavascriptRequirement: {}
27
28doc: |
29  This tool drops the tables and deletes all previous data from the database
30
31
32inputs:
33  registry:
34    type: File?
35    inputBinding:
36      prefix: --registry
37    doc: |
38      A path to the data model file
39  domain:
40    type: string
41    doc: the name of the domain
42    inputBinding:
43      prefix: --domain
44  table:
45    type: string?
46    inputBinding:
47      prefix: --table
48    default: ps
49    doc: the name of the table being deleted
50  database:
51    type: File
52    doc: Path to database connection file, usually database.ini
53    inputBinding:
54      prefix: --db
55  connection_name:
56    type: string
57    doc: The name of the section in the database.ini file
58    inputBinding:
59      prefix: --connection
60
61arguments:
62    - valueFrom: "--reset"
63
64
65outputs:
66  log:
67    type: File
68    outputBinding:
69      glob: "*.log"
70  errors:
71    type: stderr
72
73stderr:  $("reset-" + inputs.table + ".err")