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Schäfer","Nina M. Stadel","Peter P. Pott","Thomas Maier" ], "authors": [ {"first" : "Peter", "last" : "Schmid"}, {"first" : "Max B.", "last" : "Schäfer"}, {"first" : "Nina M.", "last" : "Stadel"}, {"first" : "Peter P.", "last" : "Pott"}, {"first" : "Thomas", "last" : "Maier"} ], "volume": "23","number": "2","pages": "110-117","abstract": "One of the heavily burdened actors in the operating theatre is the scrub nurse who is responsible for the organized and orderly workflow in the operating theatre. One of the main tasks of the scrub nurse is to perform quick and appropriate instrumentation because fast and proactive instrumentation is crucial for the success of the operation. The actual deficiency of specialist staff in the healthcare sector is motivating the automation of repetitive tasks and simple work steps in order to relieve staff in the future and free up capacity for complex and important activities. A robotic assistance system appears to be a suitable solution for many of these challenges. The vision is to develop advanced assistance systems for the handling of instruments in future surgical procedures. In this work, surgery of the carpal tunnel was chosen as example task. The focus lied on the type and scope of the individual working steps. The analysis was carried out by video analyses and by observing corresponding surgical procedures. Based on the results of the analysis, potentials for improving the workflow were derived and requirements for a robotic assistance system were defined.", "bibtexKey": "RePEc:zna:indecs:v:23:y:2025:i:2:p:110-117" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2a57598c00be947ee8946fabe0f725451/imt", "tags" : [ "myown","assistance","ergonomics","workflow","robotic","scrub","imt","system","human-machine-interaction","medizingerätetechnik","nurse","institut-für-medizingerätetechnik" ], "intraHash" : "a57598c00be947ee8946fabe0f725451", "interHash" : "74e41f4597d52fb0ee356e2055a4829a", "label" : "Automation Potential in the Workflow of a Scrub Nurse", "user" : "imt", "description" : "", "date" : "2025-06-30 10:38:08", "changeDate" : "2025-06-30 10:38:08", "count" : 6, "pub-type": "article", "journal": "Interdisciplinary Description of Complex Systems - scientific journal", "year": "2025", "url": "https://ideas.repec.org/a/zna/indecs/v23y2025i2p110-117.html", "author": [ "Peter Schmid","Max B. Schäfer","Nina M. Stadel","Peter P. Pott","Thomas Maier" ], "authors": [ {"first" : "Peter", "last" : "Schmid"}, {"first" : "Max B.", "last" : "Schäfer"}, {"first" : "Nina M.", "last" : "Stadel"}, {"first" : "Peter P.", "last" : "Pott"}, {"first" : "Thomas", "last" : "Maier"} ], "volume": "23","number": "2","pages": "110-117","abstract": "One of the heavily burdened actors in the operating theatre is the scrub nurse who is responsible for the organized and orderly workflow in the operating theatre. One of the main tasks of the scrub nurse is to perform quick and appropriate instrumentation because fast and proactive instrumentation is crucial for the success of the operation. The actual deficiency of specialist staff in the healthcare sector is motivating the automation of repetitive tasks and simple work steps in order to relieve staff in the future and free up capacity for complex and important activities. A robotic assistance system appears to be a suitable solution for many of these challenges. The vision is to develop advanced assistance systems for the handling of instruments in future surgical procedures. In this work, surgery of the carpal tunnel was chosen as example task. The focus lied on the type and scope of the individual working steps. The analysis was carried out by video analyses and by observing corresponding surgical procedures. Based on the results of the analysis, potentials for improving the workflow were derived and requirements for a robotic assistance system were defined.", "bibtexKey": "RePEc:zna:indecs:v:23:y:2025:i:2:p:110-117" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2a31a583921d729a266bbbe8b680a5757/droessler", "tags" : [ "academic","access","diamond","finanzierung","monopoly","open","peer","publishing","review","workflow" ], "intraHash" : "a31a583921d729a266bbbe8b680a5757", "interHash" : "30ac59514a393223982130df4f52e55a", "label" : "Replacing academic journals", "user" : "droessler", "description" : "", "date" : "2025-04-27 23:45:51", "changeDate" : "2025-04-27 23:47:13", "count" : 1, "pub-type": "article", "journal": "Royal Society Open Science","publisher":"The Royal Society", "year": "2023", "url": "http://dx.doi.org/10.1098/rsos.230206", "author": [ "Björn Brembs","Philippe Huneman","Felix Schönbrodt","Gustav Nilsonne","Toma Susi","Renke Siems","Pandelis Perakakis","Varvara Trachana","Lai Ma","Sara Rodriguez-Cuadrado" ], "authors": [ {"first" : "Björn", "last" : "Brembs"}, {"first" : "Philippe", "last" : "Huneman"}, {"first" : "Felix", "last" : "Schönbrodt"}, {"first" : "Gustav", "last" : "Nilsonne"}, {"first" : "Toma", "last" : "Susi"}, {"first" : "Renke", "last" : "Siems"}, {"first" : "Pandelis", "last" : "Perakakis"}, {"first" : "Varvara", "last" : "Trachana"}, {"first" : "Lai", "last" : "Ma"}, {"first" : "Sara", "last" : "Rodriguez-Cuadrado"} ], "volume": "10","number": "7","abstract": "Replacing traditional journals with a more modern solution is not a new idea. Here, we propose ways to overcome the social dilemma underlying the decades of inaction. Any solution needs to not only resolve the current problems but also be capable of preventing takeover by corporations: it needs to replace traditional journals with a decentralized, resilient, evolvable network that is interconnected by open standards and open-source norms under the governance of the scholarly community. It needs to replace the monopolies connected to journals with a genuine, functioning and well-regulated market. In this new market, substitutable service providers compete and innovate according to the conditions of the scholarly community, avoiding sustained vendor lock-in. Therefore, a standards body needs to form under the governance of the scholarly community to allow the development of open scholarly infrastructures servicing the entire research workflow. We propose a redirection of money from legacy publishers to the new network by funding bodies broadening their minimal infrastructure requirements at recipient institutions to include modern infrastructure components replacing and complementing journal functionalities. Such updated eligibility criteria by funding agencies would help realign the financial incentives for recipient institutions with public and scholarly interest.", "issn" : "2054-5703", "doi" : "10.1098/rsos.230206", "bibtexKey": "brembs2023replacing" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/23513cad09748e49d07454352e302c9f4/droessler", "tags" : [ "access","open","workflow","workflows" ], "intraHash" : "3513cad09748e49d07454352e302c9f4", "interHash" : "39d11e5e064f601efb8562713dade003", "label" : "\u201CGood Enough\u201D: Developing a Simple Workflow for Open Access Policy Implementation", "user" : "droessler", "description" : "", "date" : "2024-06-04 14:24:09", "changeDate" : "2024-06-04 14:24:09", "count" : 1, "pub-type": "article", "journal": "College & Undergraduate Libraries","publisher":"Informa UK Limited", "year": "2014", "url": "http://dx.doi.org/10.1080/10691316.2014.932263", "author": [ "Shannon Kipphut-Smith" ], "authors": [ {"first" : "Shannon", "last" : "Kipphut-Smith"} ], "volume": "21","number": "3\u20134","pages": "279\u2013294", "issn" : "1545-2530", "doi" : "10.1080/10691316.2014.932263", "bibtexKey": "kipphutsmith2014enough" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2b1d6bb6b2127c971e641c60243c2e5be/itke", "tags" : [ "FEA","Finite","Robotic","workflow","Digital-physical","2023","knippers","analysis","Carbon","modelling","filament","Feedback-based","Co-design","itke","from:petraheim","winding","fabrication","(FEA)","menges","fibre","gil","zechmeister","Interdisciplinary","design","element","Coreless","computational","Computational" ], "intraHash" : "b1d6bb6b2127c971e641c60243c2e5be", "interHash" : "3b667a92e528e5deae53d437093dbd07", "label" : "Concurrent, computational design and modelling of structural, coreless-wound building components", "user" : "itke", "description" : "", "date" : "2023-05-25 11:53:03", "changeDate" : "2023-05-25 11:59:25", "count" : 7, "pub-type": "article", "journal": "Automation in Construction", "year": "2023", "url": "https://www.sciencedirect.com/science/article/pii/S0926580523001498", "author": [ "Christoph Zechmeister","Marta Gil Pérez","Jan Knippers","Achim Menges" ], "authors": [ {"first" : "Christoph", "last" : "Zechmeister"}, {"first" : "Marta", "last" : "Gil Pérez"}, {"first" : "Jan", "last" : "Knippers"}, {"first" : "Achim", "last" : "Menges"} ], "volume": "151","pages": "104889","abstract": "Coreless filament winding extends established industrial processes, enabling the fabrication of building parts with minimal formwork. Since the part's final geometry is unknown until completed, it creates uncertainties for design and engineering. Existing architectural design workflows are insufficient, and industrial software packages cannot capture the complexity of self-deforming fibres to model complex fibre layups. This research introduces a feedback-based computational method conceived as four development cycles to design and evaluate fibre layups of large-scale architectural building components, and a multi-scalar digital-physical design and evaluation toolset to model and evaluate them at multiple resolutions. The universal applicability of the developed methods is showcased by two different architectural fibre structures. The results show how the systematization of methods and toolset allow for increased design flexibility and deeper integration of interdisciplinary collaborators. They constitute an important step towards a consolidated co-design methodology and demonstrate the potential to simultaneously co-evolve design and evaluation methods.", "language" : "eng", "issn" : "0926-5805", "doi" : "https://doi.org/10.1016/j.autcon.2023.104889", "bibtexKey": "ZECHMEISTER2023104889" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/23210e1ffc832fafc1dca203bc6d8869d/hermann", "tags" : [ "diss","documentation","workflow" ], "intraHash" : "3210e1ffc832fafc1dca203bc6d8869d", "interHash" : "a3e47a18268aab24f08bfe75e91190cb", "label" : "Docs for Developers", "user" : "hermann", "description" : "", "date" : "2022-05-02 11:10:23", "changeDate" : "2022-05-02 09:10:23", "count" : 1, "pub-type": "book", "publisher":"Apress", "year": "2021", "url": "https://doi.org/10.1007%2F978-1-4842-7217-6", "author": [ "Jared Bhatti","Zachary Sarah Corleissen","Jen Lambourne","David Nunez","Heidi Waterhouse" ], "authors": [ {"first" : "Jared", "last" : "Bhatti"}, {"first" : "Zachary Sarah", "last" : "Corleissen"}, {"first" : "Jen", "last" : "Lambourne"}, {"first" : "David", "last" : "Nunez"}, {"first" : "Heidi", "last" : "Waterhouse"} ], "doi" : "10.1007/978-1-4842-7217-6", "bibtexKey": "bhatti2021developers" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/250bfad0158ba67cad75c5d02775cfd63/itke", "tags" : [ "2022","Balangé","architecture","bischoff","collaborative","composite","computational","coreless","coreless-wound","digital","engineering","evaluation","fibre-polymer","filament","framework","from:petraheim","förster","gienger","gil","gresser","guo","hügle","itke","kannenberg","knippers","menges","middendorf","minderman","model","object","schwieger","structural","structures","tarin","winding","workflow","zechmeister" ], "intraHash" : "50bfad0158ba67cad75c5d02775cfd63", "interHash" : "d85bc6f54f1018989c61c91bfe7caa86", "label" : "Computational co-design framework for coreless wound fibre\u2013polymer composite structures", "user" : "itke", "description" : "", "date" : "2022-03-01 16:39:54", "changeDate" : "2022-03-02 08:40:10", "count" : 8, "pub-type": "article", "journal": "Journal of Computational Design and Engineering", "year": "2022", "url": "", "author": [ "Marta Gil Pérez","Christoph Zechmeister","Fabian Kannenberg","P. Mindermann","L. Balangé","Yanan Guo","S. Hügle","A. Gienger","D. Forster","Manfred Bischoff","C. Tarín","P. Middendorf","V. Schwieger","Götz T. Gresser","Achim Menges","Jan Knippers" ], "authors": [ {"first" : "Marta", "last" : "Gil Pérez"}, {"first" : "Christoph", "last" : "Zechmeister"}, {"first" : "Fabian", "last" : "Kannenberg"}, {"first" : "P.", "last" : "Mindermann"}, {"first" : "L.", "last" : "Balangé"}, {"first" : "Yanan", "last" : "Guo"}, {"first" : "S.", "last" : "Hügle"}, {"first" : "A.", "last" : "Gienger"}, {"first" : "D.", "last" : "Forster"}, {"first" : "Manfred", "last" : "Bischoff"}, {"first" : "C.", "last" : "Tarín"}, {"first" : "P.", "last" : "Middendorf"}, {"first" : "V.", "last" : "Schwieger"}, {"first" : "Götz T.", "last" : "Gresser"}, {"first" : "Achim", "last" : "Menges"}, {"first" : "Jan", "last" : "Knippers"} ], "volume": "9","number": "2","pages": "310\u2013329","abstract": "In coreless filament winding, resin-impregnated fibre filaments are wound around anchor points without an additional mould. The final geometry of the produced part results from the interaction of fibres in space and is initially undetermined. Therefore, the success of large-scale coreless wound fibre composite structures for architectural applications relies on the reciprocal collaboration of simulation, fabrication, quality evaluation, and data integration domains. The correlation of data from those domains enables the optimization of the design towards ideal performance and material efficiency. This paper elaborates on a computational co-design framework to enable new modes of collaboration for coreless wound fibre\u2013polymer composite structures. It introduces the use of a shared object model acting as a central data repository that facilitates interdisciplinary data exchange and the investigation of correlations between domains. The application of the developed computational co-design framework is demonstrated in a case study in which the data are successfully mapped, linked, and analysed across the different fields of expertise. The results showcase the framework\u2019s potential to gain a deeper understanding of large-scale coreless wound filament structures and their fabrication and geometrical implications for design optimization.", "language" : "eng", "doi" : "https://doi.org/10.1093/jcde/qwab081", "bibtexKey": "gilperez2022computational" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/250bfad0158ba67cad75c5d02775cfd63/petraheim", "tags" : [ "2022","Balangé","architecture","bischoff","collaborative","composite","computational","coreless","coreless-wound","digital","engineering","evaluation","fibre-polymer","filament","framework","förster","gienger","gil","gresser","guo","hügle","itke","kannenberg","knippers","menges","middendorf","minderman","model","object","schwieger","structural","structures","tarin","winding","workflow","zechmeister" ], "intraHash" : "50bfad0158ba67cad75c5d02775cfd63", "interHash" : "d85bc6f54f1018989c61c91bfe7caa86", "label" : "Computational co-design framework for coreless wound fibre\u2013polymer composite structures", "user" : "petraheim", "description" : "", "date" : "2022-03-01 16:39:54", "changeDate" : "2022-03-02 08:39:44", "count" : 8, "pub-type": "article", "journal": "Journal of Computational Design and Engineering", "year": "2022", "url": "", "author": [ "Marta Gil Pérez","Christoph Zechmeister","Fabian Kannenberg","P. Mindermann","L. Balangé","Yanan Guo","S. Hügle","A. Gienger","D. Forster","Manfred Bischoff","C. Tarín","P. Middendorf","V. Schwieger","Götz T. Gresser","Achim Menges","Jan Knippers" ], "authors": [ {"first" : "Marta", "last" : "Gil Pérez"}, {"first" : "Christoph", "last" : "Zechmeister"}, {"first" : "Fabian", "last" : "Kannenberg"}, {"first" : "P.", "last" : "Mindermann"}, {"first" : "L.", "last" : "Balangé"}, {"first" : "Yanan", "last" : "Guo"}, {"first" : "S.", "last" : "Hügle"}, {"first" : "A.", "last" : "Gienger"}, {"first" : "D.", "last" : "Forster"}, {"first" : "Manfred", "last" : "Bischoff"}, {"first" : "C.", "last" : "Tarín"}, {"first" : "P.", "last" : "Middendorf"}, {"first" : "V.", "last" : "Schwieger"}, {"first" : "Götz T.", "last" : "Gresser"}, {"first" : "Achim", "last" : "Menges"}, {"first" : "Jan", "last" : "Knippers"} ], "volume": "9","number": "2","pages": "310\u2013329","abstract": "In coreless filament winding, resin-impregnated fibre filaments are wound around anchor points without an additional mould. The final geometry of the produced part results from the interaction of fibres in space and is initially undetermined. Therefore, the success of large-scale coreless wound fibre composite structures for architectural applications relies on the reciprocal collaboration of simulation, fabrication, quality evaluation, and data integration domains. The correlation of data from those domains enables the optimization of the design towards ideal performance and material efficiency. This paper elaborates on a computational co-design framework to enable new modes of collaboration for coreless wound fibre\u2013polymer composite structures. It introduces the use of a shared object model acting as a central data repository that facilitates interdisciplinary data exchange and the investigation of correlations between domains. The application of the developed computational co-design framework is demonstrated in a case study in which the data are successfully mapped, linked, and analysed across the different fields of expertise. The results showcase the framework\u2019s potential to gain a deeper understanding of large-scale coreless wound filament structures and their fabrication and geometrical implications for design optimization.", "language" : "eng", "doi" : "https://doi.org/10.1093/jcde/qwab081", "bibtexKey": "gilperez2022computational" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2819d7de8bc921315d5b5ed06d7b603cb/felixholm", "tags" : [ "Workflow","analysis","invasive","minimally","phase","recognition","surgery","surgical" ], "intraHash" : "819d7de8bc921315d5b5ed06d7b603cb", "interHash" : "6fd2cbd579ff5a02527aa6e13ffacf05", "label" : "Workflow analysis and surgical phase recognition in minimally invasive surgery", "user" : "felixholm", "description" : "[PDF] Workflow analysis and surgical phase recognition in minimally invasive surgery | Semantic Scholar", "date" : "2021-08-06 22:15:01", "changeDate" : "2021-08-06 20:15:01", "count" : 1, "pub-type": "article", "journal": "2012 IEEE International Conference on Robotics and Biomimetics (ROBIO)", "year": "2012", "url": "", "author": [ "O. Weede","Frank Dittrich","H. Wörn","B. Jensen","A. Knoll","D. Wilhelm","M. Kranzfelder","A. Schneider","H. Feußner" ], "authors": [ {"first" : "O.", "last" : "Weede"}, {"first" : "Frank", "last" : "Dittrich"}, {"first" : "H.", "last" : "Wörn"}, {"first" : "B.", "last" : "Jensen"}, {"first" : "A.", "last" : "Knoll"}, {"first" : "D.", "last" : "Wilhelm"}, {"first" : "M.", "last" : "Kranzfelder"}, {"first" : "A.", "last" : "Schneider"}, {"first" : "H.", "last" : "Feußner"} ], "pages": "1080-1074", "bibtexKey": "Weede2012WorkflowAA" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2456d6bdd185ffdbd5a0101a04e9d58dc/hermann", "tags" : [ "FAIRConvergence","forschungsdaten","jupyter","workflow" ], "intraHash" : "456d6bdd185ffdbd5a0101a04e9d58dc", "interHash" : "f5429d8a4f9c33088dfb89c0b9bb8f51", "label" : "NiW: Converting Notebooks into Workflows to Capture Dataflow and Provenance.", "user" : "hermann", "description" : "", "date" : "2020-11-30 16:48:00", "changeDate" : "2020-11-30 15:48:00", "count" : 2, "pub-type": "inproceedings", "booktitle": "K-CAP Workshops","series": "CEUR Workshop Proceedings","publisher":"CEUR-WS.org", "year": "2017", "url": "http://dblp.uni-trier.de/db/conf/kcap/kcap2017w.html#CarvalhoWGG17", "author": [ "Lucas A. M. C. Carvalho","Regina Wang","Yolanda Gil","Daniel Garijo" ], "authors": [ {"first" : "Lucas A. M. C.", "last" : "Carvalho"}, {"first" : "Regina", "last" : "Wang"}, {"first" : "Yolanda", "last" : "Gil"}, {"first" : "Daniel", "last" : "Garijo"} ], "editor": [ "Ilaria Tiddi","Giuseppe Rizzo","Óscar Corcho" ], "editors": [ {"first" : "Ilaria", "last" : "Tiddi"}, {"first" : "Giuseppe", "last" : "Rizzo"}, {"first" : "Óscar", "last" : "Corcho"} ], "volume": "2065","pages": "12-16", "ee" : "http://ceur-ws.org/Vol-2065/paper04.pdf", "bibtexKey": "carvalho2017converting" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2451b2a54030815bf61ab4f433250e970/diglezakis", "tags" : [ "metadata","provenance","workflow" ], "intraHash" : "451b2a54030815bf61ab4f433250e970", "interHash" : "4853267b92e65ad26cf43aad42a60576", "label" : "D-PROV: Extending the PROV Provenance Model with Workflow Structure.", "user" : "diglezakis", "description" : "", "date" : "2018-12-04 11:51:53", "changeDate" : "2018-12-04 10:51:53", "count" : 2, "pub-type": "inproceedings", "booktitle": "TaPP","publisher":"USENIX Association", "year": "2013", "url": "http://dblp.uni-trier.de/db/conf/tapp/tapp2013.html#MissierDBCL13", "author": [ "Paolo Missier","Saumen C. Dey","Khalid Belhajjame","Víctor Cuevas-Vicenttín","Bertram Ludäscher" ], "authors": [ {"first" : "Paolo", "last" : "Missier"}, {"first" : "Saumen C.", "last" : "Dey"}, {"first" : "Khalid", "last" : "Belhajjame"}, {"first" : "Víctor", "last" : "Cuevas-Vicenttín"}, {"first" : "Bertram", "last" : "Ludäscher"} ], "editor": [ "Alexandra Meliou","Val Tannen" ], "editors": [ {"first" : "Alexandra", "last" : "Meliou"}, {"first" : "Val", "last" : "Tannen"} ], "ee" : "https://www.usenix.org/conference/tapp13/technical-sessions/presentation/missier", "bibtexKey": "conf/tapp/MissierDBCL13" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/287ec74a9fa93db644f40f89192288cd9/hermann", "tags" : [ "Collaboration","computing","data","network","soc2018","social","workflow" ], "intraHash" : "87ec74a9fa93db644f40f89192288cd9", "interHash" : "bb7ce68329eccfd382f4fc79e955d3bf", "label" : "The Social Compute Unit", "user" : "hermann", "description" : "", "date" : "2018-06-26 09:18:47", "changeDate" : "2018-06-26 07:19:54", "count" : 2, "pub-type": "article", "journal": "IEEE Internet Computing", "year": "2011", "url": "", "author": [ "S. Dustdar","K. Bhattacharya" ], "authors": [ {"first" : "S.", "last" : "Dustdar"}, {"first" : "K.", "last" : "Bhattacharya"} ], "volume": "15","number": "3","pages": "64-69", "issn" : "1089-7801", "doi" : "10.1109/MIC.2011.68", "bibtexKey": "dustdar2011social" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/20c5417ac76a0927bb4040198bb5ad0d6/hermann", "tags" : [ "metadaten","reproducibility","workflow" ], "intraHash" : "0c5417ac76a0927bb4040198bb5ad0d6", "interHash" : "0a245a2f3e07d4237f4673010f11f407", "label" : "Reproducibility of execution environments in computational science using Semantics and Clouds", "user" : "hermann", "description" : "Reproducibility of execution environments in computational science using Semantics and Clouds - ScienceDirect", "date" : "2018-05-24 10:44:08", "changeDate" : "2018-05-24 08:44:08", "count" : 1, "pub-type": "article", "journal": "Future Generation Computer Systems", "year": "2017", "url": "http://www.sciencedirect.com/science/article/pii/S0167739X16000029", "author": [ "Idafen Santana-Perez","Rafael Ferreira da Silva","Mats Rynge","Ewa Deelman","María S. Pérez-Hernández","Oscar Corcho" ], "authors": [ {"first" : "Idafen", "last" : "Santana-Perez"}, {"first" : "Rafael Ferreira", "last" : "da Silva"}, {"first" : "Mats", "last" : "Rynge"}, {"first" : "Ewa", "last" : "Deelman"}, {"first" : "María S.", "last" : "Pérez-Hernández"}, {"first" : "Oscar", "last" : "Corcho"} ], "volume": "67","pages": "354 - 367","abstract": "In the past decades, one of the most common forms of addressing reproducibility in scientific workflow-based computational science has consisted of tracking the provenance of the produced and published results. Such provenance allows inspecting intermediate and final results, improves understanding, and permits replaying a workflow execution. Nevertheless, this approach does not provide any means for capturing and sharing the very valuable knowledge about the experimental equipment of a computational experiment, i.e., the execution environment in which the experiments are conducted. In this work, we propose a novel approach based on semantic vocabularies that describes the execution environment of scientific workflows, so as to conserve it. We define a process for documenting the workflow application and its related management system, as well as their dependencies. Then we apply this approach over three different real workflow applications running in three distinct scenarios, using public, private, and local Cloud platforms. In particular, we study one astronomy workflow and two life science workflows for genomic information analysis. Experimental results show that our approach can reproduce an equivalent execution environment of a predefined virtual machine image on all evaluated computing platforms.", "issn" : "0167-739X", "doi" : "https://doi.org/10.1016/j.future.2015.12.017", "bibtexKey": "SANTANAPEREZ2017354" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2cb6c0ca6316c2d9804adeed71c8c71e4/hermann", "tags" : [ "forschungsdaten","roar","workflow" ], "intraHash" : "cb6c0ca6316c2d9804adeed71c8c71e4", "interHash" : "cff36b7478d93cbcb735fbca7c36a37a", "label" : "Workflow-centric research objects: First class citizens in scholarly discourse.", "user" : "hermann", "description" : "Workflow-centric research objects: First class citizens in scholarly discourse. - Archivo Digital UPM", "date" : "2018-05-24 10:38:48", "changeDate" : "2018-05-24 08:38:48", "count" : 1, "pub-type": "inproceedings", "booktitle": "Proceedings of Workshop on the Semantic Publishing", "year": "2012", "url": "http://oa.upm.es/20401/", "author": [ "Oscar Corcho","Daniel Garijo Verdejo","K. Belhajjame","Jun Zhao","P. Missier","David Newman","R. Palma","S. Bechhofer","Esteban García Cuesta","José Manuel Gómez-Pérez","Graham Klyne","Marco Roos","José Enrique Ruiz","Stian Soiland-Reyes","Lourdes Verdes-Montenegro","D. De Roure","C. Goble" ], "authors": [ {"first" : "Oscar", "last" : "Corcho"}, {"first" : "Daniel Garijo", "last" : "Verdejo"}, {"first" : "K.", "last" : "Belhajjame"}, {"first" : "Jun", "last" : "Zhao"}, {"first" : "P.", "last" : "Missier"}, {"first" : "David", "last" : "Newman"}, {"first" : "R.", "last" : "Palma"}, {"first" : "S.", "last" : "Bechhofer"}, {"first" : "Esteban García", "last" : "Cuesta"}, {"first" : "José Manuel", "last" : "Gómez-Pérez"}, {"first" : "Graham", "last" : "Klyne"}, {"first" : "Marco", "last" : "Roos"}, {"first" : "José Enrique", "last" : "Ruiz"}, {"first" : "Stian", "last" : "Soiland-Reyes"}, {"first" : "Lourdes", "last" : "Verdes-Montenegro"}, {"first" : "D. De", "last" : "Roure"}, {"first" : "C.", "last" : "Goble"} ], "pages": "1--12","abstract": "A workflow-centric research object bundles a workflow, the provenance of the results obtained by its enactment, other digital objects that are relevant for the experiment (papers, datasets, etc.), and annotations that semantically describe all these objects. In this paper, we propose a model to specify workflow-centric research objects, and show how the model can be grounded using semantic technologies and existing vocabularies, in particular the Object Reuse and Exchange (ORE) model and the Annotation Ontology (AO).We describe the life-cycle of a research object, which resembles the life-cycle of a scienti?c experiment.", "bibtexKey": "upm20401" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2019d9bca54fdf5560baf7c708f97322f/diglezakis", "tags" : [ "forschungsdaten","metadata","provenance","tools","workflow" ], "intraHash" : "019d9bca54fdf5560baf7c708f97322f", "interHash" : "511362bb7907b1455c20e84b2000b7fa", "label" : "MPO: A System to Document and Analyze Distributed Heterogeneous Workflows", "user" : "diglezakis", "description" : "MPO: A System to Document and Analyze Distributed Heterogeneous Workflows | SpringerLink", "date" : "2018-05-11 11:11:10", "changeDate" : "2018-05-11 09:11:10", "count" : 2, "pub-type": "inproceedings", "booktitle": "Provenance and Annotation of Data and Processes","publisher":"Springer International Publishing","address":"Cham", "year": "2016", "url": "", "author": [ "Kesheng Wu","Elizabeth N. Coviello","S. M. Flanagan","Martin Greenwald","Xia Lee","Alex Romosan","David P. Schissel","Arie Shoshani","Josh Stillerman","John Wright" ], "authors": [ {"first" : "Kesheng", "last" : "Wu"}, {"first" : "Elizabeth N.", "last" : "Coviello"}, {"first" : "S. M.", "last" : "Flanagan"}, {"first" : "Martin", "last" : "Greenwald"}, {"first" : "Xia", "last" : "Lee"}, {"first" : "Alex", "last" : "Romosan"}, {"first" : "David P.", "last" : "Schissel"}, {"first" : "Arie", "last" : "Shoshani"}, {"first" : "Josh", "last" : "Stillerman"}, {"first" : "John", "last" : "Wright"} ], "editor": [ "Marta Mattoso","Boris Glavic" ], "editors": [ {"first" : "Marta", "last" : "Mattoso"}, {"first" : "Boris", "last" : "Glavic"} ], "pages": "166--170","abstract": "Large scientific experiments and simulations produce vast quantities of data. Though smaller in volume, the corresponding metadata describing the production, pedigree, and ontology, is just as important as the raw data to the scientific discovery process. Driven by the application needs of a number of large-scale distributed workflows, we develop a metadata capturing and analysis system called MPO (short for Metadata, Provenance, Ontology). It seamlessly integrates with most data analysis environments and requires a minimal amount of changes to users' existing analysis programs. Users have the full control of how to instrument their programs to capture as much or as little information as they desire. Once captured in a database system, the workflows can be visualized and studied through a set of web-based tools. In large scientific collaborations where the workflows have been built up over decades, this ability to instrument the complex existing workflows and visualize the key interactions among the software components is tremendously useful.", "isbn" : "978-3-319-40593-3", "bibtexKey": "10.1007/978-3-319-40593-3_14" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2bcaf029e96c6a6cc9c5514c78e25fe67/hermann", "tags" : [ "obib","workflow" ], "intraHash" : "bcaf029e96c6a6cc9c5514c78e25fe67", "interHash" : "8fb6d4f3b49771202bcb236eb4eaf1c7", "label" : "Workflow-based Integration: Grundlagen, Technologien, Management", "user" : "hermann", "description" : "", "date" : "2018-02-26 17:15:29", "changeDate" : "2018-02-28 10:31:24", "count" : 1, "pub-type": "book", "publisher":"Springer","address":"Berlin", "year": "2005", "url": "", "author": [ "Joachim Müller" ], "authors": [ {"first" : "Joachim", "last" : "Müller"} ], "isbn" : "3-540-20439-3", "doi" : "https://doi.org/10.1007/b138228", "bibtexKey": "noauthororeditor" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2cee6beee13cb8926a81fd68609095f76/hermann", "tags" : [ "Workflow","forschungsdaten","management","processing","software","systems","workflowTracking" ], "intraHash" : "cee6beee13cb8926a81fd68609095f76", "interHash" : "d2e5fb161c8874dfbde96a79d3a6e0e7", "label" : "A characterization of workflow management systems for extreme-scale applications", "user" : "hermann", "description" : "", "date" : "2018-02-14 21:53:58", "changeDate" : "2018-02-14 20:53:58", "count" : 2, "pub-type": "article", "journal": "Future Generation Computer Systems", "year": "2017", "url": "http://www.sciencedirect.com/science/article/pii/S0167739X17302510", "author": [ "Rafael Ferreira da Silva","Rosa Filgueira","Ilia Pietri","Ming Jiang","Rizos Sakellariou","Ewa Deelman" ], "authors": [ {"first" : "Rafael Ferreira", "last" : "da Silva"}, {"first" : "Rosa", "last" : "Filgueira"}, {"first" : "Ilia", "last" : "Pietri"}, {"first" : "Ming", "last" : "Jiang"}, {"first" : "Rizos", "last" : "Sakellariou"}, {"first" : "Ewa", "last" : "Deelman"} ], "volume": "75","pages": "228 - 238", "issn" : "0167-739X", "doi" : "https://doi.org/10.1016/j.future.2017.02.026", "bibtexKey": "dasilva2017characterization" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/270263650f8b00b25adea31efb86241f8/diglezakis", "tags" : [ "forschungsdaten","imported","workflow" ], "intraHash" : "70263650f8b00b25adea31efb86241f8", "interHash" : "0499a3a3066638b6704c01c5185496d3", "label" : "Research Data Workflows: From Research Data Lifecycle Models to Institutional Solutions", "user" : "diglezakis", "description" : "", "date" : "2017-12-11 10:26:09", "changeDate" : "2017-12-11 09:29:13", "count" : 2, "pub-type": "inproceedings", "booktitle": "Selected Papers from the CLARIN Annual Conference 2015, October 14\u201316, 2015, Wroclaw, Poland","publisher":"Linköping University Electronic Press, Linköpings universitet", "year": "2015", "url": "", "author": [ "Tanja Wissik","Matej Ďurčo" ], "authors": [ {"first" : "Tanja", "last" : "Wissik"}, {"first" : "Matej", "last" : "Ďurčo"} ], "number": "123","pages": "94-107", "issn" : "1650-3740", "bibtexKey": "wissikDurco2015" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2f9638bd803ce59c54e6a0bd41a9bf515/diglezakis", "tags" : [ "repository","scientific","software","softwareLizenzMotivation","workflow" ], "intraHash" : "f9638bd803ce59c54e6a0bd41a9bf515", "interHash" : "2b31e514b2bc2caf54d7849e7c3c882e", "label" : "The TimeStudio Project: An open source scientific workflow system for the behavioral and brain sciences", "user" : "diglezakis", "description" : "The TimeStudio Project: An open source scientific workflow system for the behavioral and brain sciences | SpringerLink", "date" : "2017-09-12 14:04:34", "changeDate" : "2017-09-12 14:15:03", "count" : 1, "pub-type": "article", "journal": "Behavior Research Methods", "year": "2016", "url": "https://doi.org/10.3758/s13428-015-0616-x", "author": [ "Pär Nyström","Terje Falck-Ytter","Gustaf Gredebäck" ], "authors": [ {"first" : "Pär", "last" : "Nyström"}, {"first" : "Terje", "last" : "Falck-Ytter"}, {"first" : "Gustaf", "last" : "Gredebäck"} ], "volume": "48","number": "2","pages": "542--552","abstract": "This article describes a new open source scientific workflow system, the TimeStudio Project, dedicated to the behavioral and brain sciences. The program is written in MATLAB and features a graphical user interface for the dynamic pipelining of computer algorithms developed as TimeStudio plugins. TimeStudio includes both a set of general plugins (for reading data files, modifying data structures, visualizing data structures, etc.) and a set of plugins specifically developed for the analysis of event-related eyetracking data as a proof of concept. It is possible to create custom plugins to integrate new or existing MATLAB code anywhere in a workflow, making TimeStudio a flexible workbench for organizing and performing a wide range of analyses. The system also features an integrated sharing and archiving tool for TimeStudio workflows, which can be used to share workflows both during the data analysis phase and after scientific publication. TimeStudio thus facilitates the reproduction and replication of scientific studies, increases the transparency of analyses, and reduces individual researchers' analysis workload. The project website ( http://timestudioproject.com ) contains the latest releases of TimeStudio, together with documentation and user forums.", "issn" : "1554-3528", "doi" : "10.3758/s13428-015-0616-x", "bibtexKey": "Nyström2016" } ] }