debugWorkflow

<code>debugWorkflow</code> allows to initiate a workflow job for
developers to work / debug on workflow actions.

An engine to facilitate the orchestration and execution of metadata-driven data management workflows, in compliance with 'FAIR'
(Findable, Accessible, Interoperable and Reusable) data management principles. By means of a pivot metadata model, relying on the 'DublinCore' standard (<https://dublincore.org/>),
a unique source of metadata can be used to operate multiple and inter-connected data management actions. Users can also customise their own workflows by creating specific actions
but the library comes with a set of native actions targeting common geographic information and data management, in particular actions oriented to the publication on the web of metadata
and data resources to provide standard discovery and access services. At first, default actions of the library were meant to focus on providing turn-key actions for geospatial (meta)data:
1) by creating manage geospatial (meta)data complying with 'ISO/TC211' (<https://committee.iso.org/home/tc211>) and 'OGC' (<https://www.ogc.org/standards/>) geographic information standards
(eg 19115/19119/19110/19139) and related best practices (eg. 'INSPIRE'); and 2) by facilitating extraction, reading and publishing of standard geospatial (meta)data within widely used software
that compound a Spatial Data Infrastructure ('SDI'), including spatial databases (eg. 'PostGIS'), metadata catalogues (eg. 'GeoNetwork', 'CSW' servers), data servers (eg. 'GeoServer'). The library was
then extended to actions for other domains: 1) biodiversity (meta)data standard management including handling of 'EML' metadata, and their management with 'DataOne' servers, 2) in situ sensors,
remote sensing and model outputs (meta)data standard management by handling part of 'CF' conventions, 'NetCDF' data format and 'OPeNDAP' access protocol, and their management with 'Thredds' servers,
3) generic / domain agnostic (meta)data standard managers ('DublinCore', 'DataCite'), to facilitate the publication of data within (meta)data repositories such as 'Zenodo' (<https://zenodo.org>)
or DataVerse (<https://dataverse.org/>). The execution of several actions will then allow to cross-reference (meta)data resources in each action performed, offering a way to bind resources
between each other (eg. reference 'Zenodo' 'DOI' in 'GeoNetwork'/'GeoServer' metadata, or vice versa reference 'GeoNetwork'/'GeoServer' links in 'Zenodo' or 'EML' metadata). The use of
standardized configuration files ('JSON' or 'YAML' formats) allow fully reproducible workflows to facilitate the work of data and information managers.

Emmanuel Blondel

geoflow

Orchestrate Geospatial (Meta)Data Management Workflows and
Manage FAIR Services

Julien, Barde

Wilfried Heintz

Alexandre Bennici

Sylvain Poulain

Bastien Grasset

Mathias Rouan

Emilie Lerigoleur

Yvan Le Bras

Jeroen Ooms

debugWorkflow function

<dl><dt>file</dt>
<dd>configuration file</dd>
<dt>dir</dt>
<dd>directory where to debug/execute the workflow</dd>
<dt>entityIndex</dt>
<dd>index of the entity within the list of loaded entities. Default is 1</dd>
<dt>copyData</dt>
<dd>whether data should be downloaded/copied to job data directory.
Default is <code>TRUE</code>.</dd>
<dt>runSoftwareActions</dt>
<dd>whether software actions should be run. Default is <code>TRUE</code>.</dd>
<dt>runLocalActions</dt>
<dd>whether entity data local actions (if any) should be run.
Default is <code>TRUE</code></dd></dl>

Arguments

Emmanuel Blondel, <a href="/link/emmanuel.blondel1%40gmail.com?package=geoflow&version=1.2.0" data-mini-rdoc="geoflow::emmanuel.blondel1@gmail.com">emmanuel.blondel1@gmail.com</a>

Author

debugWorkflow — debugWorkflow

<dl>

<dt>file</dt>
<dd>configuration file</dd>


<dt>dir</dt>
<dd>directory where to debug/execute the workflow</dd>


<dt>entityIndex</dt>
<dd>index of the entity within the list of loaded entities. Default is 1</dd>


<dt>copyData</dt>
<dd>whether data should be downloaded/copied to job data directory.
Default is <code>TRUE</code>.</dd>


<dt>runSoftwareActions</dt>
<dd>whether software actions should be run. Default is <code>TRUE</code>.</dd>


<dt>runLocalActions</dt>
<dd>whether entity data local actions (if any) should be run.
Default is <code>TRUE</code></dd>

</dl>

Emmanuel Blondel, <a href='mailto:emmanuel.blondel1@gmail.com'>emmanuel.blondel1@gmail.com</a>

debugWorkflow: debugWorkflow

Description

Usage

Value

Arguments

Author