#!/usr/bin/env cwl-runner
### FTS Parser
# Copyright (c) 2021. Harvard University
#
# Developed by Research Software Engineering,
# Faculty of Arts and Sciences, Research Computing (FAS RC)
# Author: Michael A Bouzinier
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
#
cwlVersion: v1.2
class: CommandLineTool
baseCommand: [python, -m, cms.registry]
doc: |
This tool examines a directory with raw CMS data, looking
for File Transfer Summary (FTS) files. It examnines each
FTS file under directory (recursively) and creates a unified
data model for input raw CMS data. If any FTS files for
different years are incompatible with one another, a
warning is reported. However, so far we found that all years
are compatible.
inputs:
input:
type: Directory
inputBinding:
prefix: --input
doc: |
A path to directory, containing unpacked CMS
files. The tool will recursively look in subdirectories
for FTS files
output:
type: string
default: "cms.yaml"
doc: A path to a file name with resulting data model
inputBinding:
prefix: --output
outputs:
log:
type: File?
outputBinding:
glob: "registry*.log"
model:
type: File?
outputBinding:
glob: "*.yaml"
errors:
type: stderr
stderr: parse_fts.err