1#!/usr/bin/env cwl-runner
2### FTS Parser
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.cms.registry]
25
26doc: |
27 This tool examines a directory with raw CMS data, looking
28 for [File Transfer Summary (FTS)](../fts) files. It examines each
29 FTS file under directory (recursively) and creates a unified
30 data model for input raw CMS data. If any FTS files for
31 different years are incompatible with one another, a
32 warning is reported. However, so far we found that all years
33 are compatible.
34
35 See also [Python FTS Parser](../members/fts2yaml)
36
37
38inputs:
39 input:
40 type: Directory
41 inputBinding:
42 prefix: --input
43 doc: |
44 A path to directory, containing unpacked CMS
45 files. The tool will recursively look in subdirectories
46 for FTS files
47 output:
48 type: string
49 default: "cms.yaml"
50 doc: A path to a file name with resulting data model
51 inputBinding:
52 prefix: --output
53
54outputs:
55 log:
56 type: File?
57 outputBinding:
58 glob: "registry*.log"
59 model:
60 type: File?
61 outputBinding:
62 glob: "*.yaml"
63 errors:
64 type: stderr
65
66stderr: parse_fts.err