ICALEPCS2023 - List of Authors (Mannix, O.)

Paper	Title	Page
WE3BCO09	IR of FAIR - Principles at the Instrument Level	1046
	G. Günther, O. Mannix, V. Serve HZB, Berlin, Germany S. Baunack KPH, Mainz, Germany L. Capozza, F. Maas, M.C. Wilfert HIM, Mainz, Germany O. Freyermuth Uni Bonn, Bonn, Germany P. Gonzalez-Caminal, S. Karstensen, A. Lindner, I. Oceano, C. Schneide, K. Schwarz, T. Schörner-Sadenius, L.-M. Stein DESY, Hamburg, Germany B. Gou IMP/CAS, Lanzhou, People’s Republic of China J. Isaak, S. Typel TU Darmstadt, Darmstadt, Germany A.K. Mistry GSI, Darmstadt, Germany
	Awareness of the need for FAIR data management has increased in recent years but examples of how to achieve this are often missing. Focusing on the large-scale instrument A4 at the MAMI accelerator, we transfer findings of the EMIL project at the BESSY synchrotron* to improve raw data, i.e. the primary output stored on long-term basis, according to the FAIR principles. Here, the instrument control software plays a key role as the central authority to start measurements and orchestrate connected (meta)data-taking processes. In regular discussions we incorporate the experiences of a wider community and engage to optimize instrument output through various measures from conversion to machine-readable formats over metadata enrichment to additional files creating scientific context. The improvements were already applied to currently built next generation instruments and could serve as a general guideline for publishing data sets. *G. Günther et al. FAIR meets EMIL: Principles in Practice. Proceedings of ICALEPCS2021, https://doi.org/10.18429/JACoW-ICALEPCS2021-WEBL05
	Slides WE3BCO09 [1.400 MB]
DOI •	reference for this paper ※ doi:10.18429/JACoW-ICALEPCS2023-WE3BCO09
About •	Received ※ 04 October 2023 — Revised ※ 24 October 2023 — Accepted ※ 08 December 2023 — Issued ※ 15 December 2023
Cite •	reference for this paper using ※ BibTeX, ※ LaTeX, ※ Text/Word, ※ RIS, ※ EndNote (xml)

THMBCMO10	SECoP Integration for the Ophyd Hardware Abstraction Layer	1212
	P. Wegmann, K. Kiefer, O. Mannix, L. Rossa, W. Smith HZB, Berlin, Germany E. Faulhaber MLZ, Garching, Germany M. Zolliker PSI, Villigen PSI, Switzerland
	At the core of the Bluesky experimental control ecosystem the ophyd hardware abstraction, a consistent high-level interface layer, is extremely powerful for complex device integration. It introduces the device data model to EPICS and eases integration of alien control protocols. This paper focuses on the integration of the Sample Environment Communication Protocol (SECoP)* into the ophyd layer, enabling seamless incorporation of sample environment hardware into beamline experiments at photon and neutron sources. The SECoP integration was designed to have a simple interface and provide plug-and-play functionality while preserving all metadata and structural information about the controlled hardware. Leveraging the self-describing characteristics of SECoP, automatic generation and configuration of ophyd devices is facilitated upon connecting to a Sample Environment Control (SEC) node. This work builds upon a modified SECoP-client provided by the Frappy framework*, intended for programming SEC nodes with a SECoP interface. This paper presents an overview of the architecture and implementation of the ophyd-SECoP integration and includes examples for better understanding. Klaus Kiefer et al. "An introduction to SECoP - the sample environment communication protocol". **Markus Zolliker and Enrico Faulhaber url: https://github.com/sampleenvironment/Frappy.
	Slides THMBCMO10 [0.596 MB]
	Poster THMBCMO10 [0.809 MB]
DOI •	reference for this paper ※ doi:10.18429/JACoW-ICALEPCS2023-THMBCMO10
About •	Received ※ 05 October 2023 — Accepted ※ 08 December 2023 — Issued ※ 14 December 2023
Cite •	reference for this paper using ※ BibTeX, ※ LaTeX, ※ Text/Word, ※ RIS, ※ EndNote (xml)

THMBCMO17	FAIR Data of Physical and Digital Beamlines	1231
	G. Günther, O. Mannix, O. Ruslan, S. Vadilonga HZB, Berlin, Germany
	Simulations play a crucial role in instrument design, as a digital precursor of a real-world object they contain a comprehensive description of the setup. Unfortunately, this digital representation is often neglected once the real instrument is fully commissioned. To preserve the symbiosis of simulated and real-world instrument beyond commissioning we connect the two worlds through the instrument control software. The instrument control simultaneously starts measurements and simulations, receives feedback from both, and directs (meta)data to a NeXus file - a standard format in photon and neutron science. The instrument section of the produced NeXus file is enriched with detailed simulation parameters where the current state of the instrument is reflected by including real motor positions such as incorporating the actual aperture of a slit system. As a result, the enriched instrument description increases the reusability of experimental data in sense of the FAIR principles. The data is ready to be exploited by machine-learning techniques, such as for predictive maintenance applications as it is possible to perform simulations of a measurement directly from the NeXus file. The realization at the Aquarius beamline * at Bessy II in connection with the Ray-UI simulation software and RayPyNG API * serves as a prototype for a more general application. * https://www.helmholtz-berlin.de/forschung/oe/wi/optik-strahlrohre/projekte/aquarius_en.html https://doi.org/10.1063/1.5084665 * https://pypi.org/project/raypyng
	Slides THMBCMO17 [0.632 MB]
	Poster THMBCMO17 [0.828 MB]
DOI •	reference for this paper ※ doi:10.18429/JACoW-ICALEPCS2023-THMBCMO17
About •	Received ※ 06 October 2023 — Accepted ※ 11 December 2023 — Issued ※ 14 December 2023
Cite •	reference for this paper using ※ BibTeX, ※ LaTeX, ※ Text/Word, ※ RIS, ※ EndNote (xml)

THPDP101	Creating of HDF5 Files as Data Source for Analyses Using the Example of ALPS IIc and the DOOCS Control System	1570
	S. Karstensen, P. Gonzalez-Caminal, A. Lindner, I. Oceano, V. Rybnikov, K. Schwarz, G. Sedov DESY, Hamburg, Germany G. Günther, O. Mannix HZB, Berlin, Germany
	ALPS II is a light-shining through a wall (LSW) experiment to search for WISPs (very Weakly Interacting Slim Particles). Potential WISP candidates are axion-like particles or hidden sector photons. Axion-like particles may convert to light (and vice versa) in presence of a magnetic field. Similarly, hidden sector photons "mix" with light independent of any magnetic fields. This is exploited by ALPS II- Light from strong laser is shone into a magnetic field. Laser photons can be converted into a WISPs in front of a light-blocking barrier and reconverted into photons behind that barrier. The experiment exploits optical resonators for laser power build-up in a large-scale optical cavity to boost the available power for the WISP production as well as their reconversion probability to light. The Distributed Object-Oriented Control System - DOOCS - provides a versatile software framework for creating accelerator-based control system applications. These can range from monitoring simple temperature sensors up to high-level controls and feedbacks of beam parameters as required for complex accelerator operations. In order to enable data analysis by researchers who do not have access to the DOOCS internal control system to read measured values, the measurement and control data are extracted from the control system and saved in HDF5 file format. Through this process, the data is decoupled from the control system and can be analysed on the NAF computer system, among other things. NodeRed acts here as a graphical tool for creating HDF5 files.
	Poster THPDP101 [50.659 MB]
DOI •	reference for this paper ※ doi:10.18429/JACoW-ICALEPCS2023-THPDP101
About •	Received ※ 04 October 2023 — Revised ※ 12 October 2023 — Accepted ※ 06 December 2023 — Issued ※ 18 December 2023
Cite •	reference for this paper using ※ BibTeX, ※ LaTeX, ※ Text/Word, ※ RIS, ※ EndNote (xml)

Paper

Title

Page

IR of FAIR - Principles at the Instrument Level

1046

G. Günther, O. Mannix, V. Serve
HZB, Berlin, Germany
S. Baunack
KPH, Mainz, Germany
L. Capozza, F. Maas, M.C. Wilfert
HIM, Mainz, Germany
O. Freyermuth
Uni Bonn, Bonn, Germany
P. Gonzalez-Caminal, S. Karstensen, A. Lindner, I. Oceano, C. Schneide, K. Schwarz, T. Schörner-Sadenius, L.-M. Stein
DESY, Hamburg, Germany
B. Gou
IMP/CAS, Lanzhou, People’s Republic of China
J. Isaak, S. Typel
TU Darmstadt, Darmstadt, Germany
A.K. Mistry
GSI, Darmstadt, Germany

Awareness of the need for FAIR data management has increased in recent years but examples of how to achieve this are often missing. Focusing on the large-scale instrument A4 at the MAMI accelerator, we transfer findings of the EMIL project at the BESSY synchrotron* to improve raw data, i.e. the primary output stored on long-term basis, according to the FAIR principles. Here, the instrument control software plays a key role as the central authority to start measurements and orchestrate connected (meta)data-taking processes. In regular discussions we incorporate the experiences of a wider community and engage to optimize instrument output through various measures from conversion to machine-readable formats over metadata enrichment to additional files creating scientific context. The improvements were already applied to currently built next generation instruments and could serve as a general guideline for publishing data sets.
*G. Günther et al. FAIR meets EMIL: Principles in Practice. Proceedings of ICALEPCS2021, https://doi.org/10.18429/JACoW-ICALEPCS2021-WEBL05

Slides WE3BCO09 [1.400 MB]

DOI •

reference for this paper ※ doi:10.18429/JACoW-ICALEPCS2023-WE3BCO09

About •

Received ※ 04 October 2023 — Revised ※ 24 October 2023 — Accepted ※ 08 December 2023 — Issued ※ 15 December 2023

Cite •

reference for this paper using ※ BibTeX, ※ LaTeX, ※ Text/Word, ※ RIS, ※ EndNote (xml)

THMBCMO10

SECoP Integration for the Ophyd Hardware Abstraction Layer

1212

P. Wegmann, K. Kiefer, O. Mannix, L. Rossa, W. Smith
HZB, Berlin, Germany
E. Faulhaber
MLZ, Garching, Germany
M. Zolliker
PSI, Villigen PSI, Switzerland

At the core of the Bluesky experimental control ecosystem the ophyd hardware abstraction, a consistent high-level interface layer, is extremely powerful for complex device integration. It introduces the device data model to EPICS and eases integration of alien control protocols. This paper focuses on the integration of the Sample Environment Communication Protocol (SECoP)* into the ophyd layer, enabling seamless incorporation of sample environment hardware into beamline experiments at photon and neutron sources. The SECoP integration was designed to have a simple interface and provide plug-and-play functionality while preserving all metadata and structural information about the controlled hardware. Leveraging the self-describing characteristics of SECoP, automatic generation and configuration of ophyd devices is facilitated upon connecting to a Sample Environment Control (SEC) node. This work builds upon a modified SECoP-client provided by the Frappy framework**, intended for programming SEC nodes with a SECoP interface. This paper presents an overview of the architecture and implementation of the ophyd-SECoP integration and includes examples for better understanding.
*Klaus Kiefer et al. "An introduction to SECoP - the sample environment communication protocol".
**Markus Zolliker and Enrico Faulhaber url: https://github.com/sampleenvironment/Frappy.

Slides THMBCMO10 [0.596 MB]

Poster THMBCMO10 [0.809 MB]

DOI •

reference for this paper ※ doi:10.18429/JACoW-ICALEPCS2023-THMBCMO10

About •

Received ※ 05 October 2023 — Accepted ※ 08 December 2023 — Issued ※ 14 December 2023

Cite •

reference for this paper using ※ BibTeX, ※ LaTeX, ※ Text/Word, ※ RIS, ※ EndNote (xml)

THMBCMO17

FAIR Data of Physical and Digital Beamlines

1231

G. Günther, O. Mannix, O. Ruslan, S. Vadilonga
HZB, Berlin, Germany

Simulations play a crucial role in instrument design, as a digital precursor of a real-world object they contain a comprehensive description of the setup. Unfortunately, this digital representation is often neglected once the real instrument is fully commissioned. To preserve the symbiosis of simulated and real-world instrument beyond commissioning we connect the two worlds through the instrument control software. The instrument control simultaneously starts measurements and simulations, receives feedback from both, and directs (meta)data to a NeXus file - a standard format in photon and neutron science. The instrument section of the produced NeXus file is enriched with detailed simulation parameters where the current state of the instrument is reflected by including real motor positions such as incorporating the actual aperture of a slit system. As a result, the enriched instrument description increases the reusability of experimental data in sense of the FAIR principles. The data is ready to be exploited by machine-learning techniques, such as for predictive maintenance applications as it is possible to perform simulations of a measurement directly from the NeXus file. The realization at the Aquarius beamline * at Bessy II in connection with the Ray-UI simulation software ** and RayPyNG API *** serves as a prototype for a more general application.
* https://www.helmholtz-berlin.de/forschung/oe/wi/optik-strahlrohre/projekte/aquarius_en.html
** https://doi.org/10.1063/1.5084665
*** https://pypi.org/project/raypyng

Slides THMBCMO17 [0.632 MB]

Poster THMBCMO17 [0.828 MB]

DOI •

reference for this paper ※ doi:10.18429/JACoW-ICALEPCS2023-THMBCMO17

About •

Received ※ 06 October 2023 — Accepted ※ 11 December 2023 — Issued ※ 14 December 2023

Cite •

reference for this paper using ※ BibTeX, ※ LaTeX, ※ Text/Word, ※ RIS, ※ EndNote (xml)

THPDP101

Creating of HDF5 Files as Data Source for Analyses Using the Example of ALPS IIc and the DOOCS Control System

1570

S. Karstensen, P. Gonzalez-Caminal, A. Lindner, I. Oceano, V. Rybnikov, K. Schwarz, G. Sedov
DESY, Hamburg, Germany
G. Günther, O. Mannix
HZB, Berlin, Germany

ALPS II is a light-shining through a wall (LSW) experiment to search for WISPs (very Weakly Interacting Slim Particles). Potential WISP candidates are axion-like particles or hidden sector photons. Axion-like particles may convert to light (and vice versa) in presence of a magnetic field. Similarly, hidden sector photons "mix" with light independent of any magnetic fields. This is exploited by ALPS II- Light from strong laser is shone into a magnetic field. Laser photons can be converted into a WISPs in front of a light-blocking barrier and reconverted into photons behind that barrier. The experiment exploits optical resonators for laser power build-up in a large-scale optical cavity to boost the available power for the WISP production as well as their reconversion probability to light. The Distributed Object-Oriented Control System - DOOCS - provides a versatile software framework for creating accelerator-based control system applications. These can range from monitoring simple temperature sensors up to high-level controls and feedbacks of beam parameters as required for complex accelerator operations. In order to enable data analysis by researchers who do not have access to the DOOCS internal control system to read measured values, the measurement and control data are extracted from the control system and saved in HDF5 file format. Through this process, the data is decoupled from the control system and can be analysed on the NAF computer system, among other things. NodeRed acts here as a graphical tool for creating HDF5 files.

Poster THPDP101 [50.659 MB]

DOI •

reference for this paper ※ doi:10.18429/JACoW-ICALEPCS2023-THPDP101

About •

Received ※ 04 October 2023 — Revised ※ 12 October 2023 — Accepted ※ 06 December 2023 — Issued ※ 18 December 2023

Cite •

reference for this paper using ※ BibTeX, ※ LaTeX, ※ Text/Word, ※ RIS, ※ EndNote (xml)