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25 events found

Keywords: service descriptions  or VLSCI  or Data carpentry 

  • Introduction to Unix for life scientists

    2 June 2016

    Lab-14\, The University of Melbourne, Australia

    Introduction to Unix for life scientists https://tess.elixir-europe.org/events/introduction-to-unix-for-life-scientists Knowledge of the Unix operating system is fundamental to being productive on high performance computing systems such as those offered by VLSCI. This workshop will introduce life scientists to the fundamental Unix concepts through a series of hands-on exercises. 2016-06-02 09:00:00 UTC 2016-06-02 00:00:00 UTC VLSCI - University of Melbourne Lab-14 Seminar Space, VLSCI, Lab-14\, The University of Melbourne, Australia Lab-14 Seminar Space, VLSCI Lab-14\, The University of Melbourne Australia 3053 Bioinformatics Computational biology Software engineering [] [] [] workshops_and_courses [] BioinformaticslifescienceABRVLSCI
  • Introduction to High Performance Computing at VLSCI

    2 June 2016

    The University of Melbourne, Australia

    Introduction to High Performance Computing at VLSCI https://tess.elixir-europe.org/events/introduction-to-high-performance-computing-at-vlsci Using High Performance Computing (HPC) resources such as VLSCI in an effective and efficient manner is key to modern research. This workshop will introduce you to HPC environments and assist you to get on with your research. 2016-06-02 09:00:00 UTC 2016-06-02 00:00:00 UTC Lab-14, VLSCI, The University of Melbourne, Australia Lab-14, VLSCI The University of Melbourne Australia Bioinformatics Computer science [] [] [] workshops_and_courses [] ABRVLSCIComputationalBiology
  • Introduction to the Genomics Virtual Laboratory and Galaxy for life scientists

    7 June 2016

    University of Melbourne, Australia

    Introduction to the Genomics Virtual Laboratory and Galaxy for life scientists https://tess.elixir-europe.org/events/introduction-to-the-genomics-virtual-laboratory-and-galaxy-for-life-scientists Galaxy is an open source, web-based platform for accessible, reproducible, and transparent computational biomedical research. It allows users without programming experience to easily specify parameters and run individual tools as well as larger workflows. It also captures run information so that any user can repeat and understand a complete computational analysis. Finally, it allows users to share and publish analyses via the web. This beginners workshop will introduce Galaxy's interface, tool use, histories, and workflows and get new users of the Genomics Virtual Laboratory up and running. 2016-06-07 09:00:00 UTC 2016-06-07 00:00:00 UTC VLSCI - University of Melbourne Lab-14, VLSCI, University of Melbourne, Australia Lab-14, VLSCI University of Melbourne Australia Bioinformatics Computational biology Genomics Computer science [] [] [] workshops_and_courses [] ABRVLSCIBioinformatics
  • Variant Calling with Galaxy and the Genomics Virtual Laboratory (beginners)

    8 June 2016

    The University of Melbourne, Australia

    Variant Calling with Galaxy and the Genomics Virtual Laboratory (beginners) https://tess.elixir-europe.org/events/variant-calling-with-galaxy-and-the-genomics-virtual-laboratory-beginners This tutorial covers the concepts of detecting small variants (SNVs and indels) in human genomic DNA using a small set of reads from chromosome 22. The tutorial is designed to introduce the tools, datatypes and workflow of variant detection. We will align reads to the genome, look for differences between reads and reference genome sequence, and filter the detected genomic variation manually to understand the computational basis of variant calling. 2016-06-08 09:00:00 UTC 2016-06-08 00:00:00 UTC VLSCI - University of Melbourne Lab-14, VLSCI, The University of Melbourne, Australia Lab-14, VLSCI The University of Melbourne Australia Genomics Bioinformatics Data architecture, analysis and design [] [] [] workshops_and_courses [] BioinformaticsvariantcallingABRVLSCI
  • RNA-Seq Differential Gene Expression Analysis using the Genomics Virtual Laboratory and Galaxy

    14 June 2016

    University of Melbourne, Australia

    RNA-Seq Differential Gene Expression Analysis using the Genomics Virtual Laboratory and Galaxy https://tess.elixir-europe.org/events/rna-seq-differential-gene-expression-analysis-using-the-genomics-virtual-laboratory-and-galaxy This tutorial covers the concepts of RNA-Seq differential gene expression (DGE) analysis using Galaxy: an open, web-based platform for accessible, reproducible, and transparent computational biomedical research. 2016-06-14 09:00:00 UTC 2016-06-14 00:00:00 UTC VLSCI - University of Melbourne Lab-14, VLSCI, University of Melbourne, Australia Lab-14, VLSCI University of Melbourne Australia Genomics RNA-Seq Bioinformatics Data architecture, analysis and design [] [] [] workshops_and_courses [] BioinformaticsABRVLSCI
  • Introduction to EBI bioinformatics resources

    22 June 2016

    University of Melbourne, Australia

    Introduction to EBI bioinformatics resources https://tess.elixir-europe.org/events/introduction-to-ebi-bioinformatics-resources This workshop introduces researchers to the rich (and freely available) resources of the European Bioinformatics Institute (EBI). We will walk through a variety of exemplary software tools and database resources, providing plenty of time for exploration. Primarily, this is targeted towards biologists with no, or very limited, bioinformatics experience to assist with ‘making a start’. 2016-06-22 09:00:00 UTC 2016-06-22 00:00:00 UTC VLSCI - University of Melbourne Lab-14, VLSCI, University of Melbourne, Australia Lab-14, VLSCI University of Melbourne Australia Bioinformatics Data architecture, analysis and design [] [] [] workshops_and_courses [] ABRVLSCIlifescienceBioinformatics
  • Introduction to Molecular Modelling & Visualisation for Life Sciences

    4 July 2016

    University of Melbourne, Australia

    Introduction to Molecular Modelling & Visualisation for Life Sciences https://tess.elixir-europe.org/events/introduction-to-molecular-modelling-visualisation-for-life-sciences This VLSCI workshop introduces beginners to molecular modelling and visualisation techniques using packages such as VMD and NAMD. After introductory talks, participants will be given practical exercises to visualise molecules as well as learn how to submit jobs to the VLSCI clusters. 2016-07-04 09:00:00 UTC 2016-07-04 00:00:00 UTC VLSCI - University of Melbourne Lab-14, VLSCI, University of Melbourne, Australia Lab-14, VLSCI University of Melbourne Australia Computational chemistry Computational biology Molecular modelling Molecular dynamics Data architecture, analysis and design [] [] [] workshops_and_courses [] ABRVLSCIComputationalBiologyMolecularInteractions
  • Intermediate Molecular Modelling & Visualisation for Life Sciences

    6 July 2016

    University of Melbourne, Australia

    Intermediate Molecular Modelling & Visualisation for Life Sciences https://tess.elixir-europe.org/events/intermediate-molecular-modelling-visualisation-for-life-sciences This workshop is for the intermediate user who is already familiar with molecular modelling and submitting cluster jobs, and is interested in learning more advanced job submission and visualisation techniques. Topics include: advanced job submission scripts; data analysis; and molecular image and movie making. 2016-07-06 09:00:00 UTC 2016-07-06 00:00:00 UTC VLSCI - University of Melbourne Lab-14, VLSCI, University of Melbourne, Australia Lab-14, VLSCI University of Melbourne Australia Data visualisation Computational chemistry Computational biology [] [] [] workshops_and_courses [] ABRVLSCIComputationalBiology
  • Open source science with Git and GitHub

    2 August 2016

    University of Melbourne, Australia

    Open source science with Git and GitHub https://tess.elixir-europe.org/events/open-source-science-with-git-and-github Learn how to keep a record your code's evolution over time using the git version control system, used by companies and open-source projects worldwide. Git allows you to easily maintain snapshots of your code as you make changes, keep multiple parallel versions of your code, and collaborate with others. Follow up with an understanding of GitHub, the king of open-source project hosting. Learn how you can use git and GitHub to do code review and contribute to your favourite open source projects. 2016-08-02 09:00:00 UTC 2016-08-02 00:00:00 UTC VLSCI - University of Melbourne Lab-14, VLSCI, University of Melbourne, Australia Lab-14, VLSCI University of Melbourne Australia Bioinformatics Data management Data submission, annotation and curation [] [] [] workshops_and_courses [] ABRVLSCIlifescience
  • Data Carpentry Workshop 2016

    18 - 19 October 2016

    Norwich, United Kingdom

    Data Carpentry Workshop 2016 https://tess.elixir-europe.org/events/data-carpentry-workshop Data Carpentry workshops are for any researcher who has data they want to analyze, and no prior computational experience is required. This hands-on workshop teaches basic concepts, skills and tools for working more effectively with data. 2016-10-18 08:30:00 UTC 2016-10-19 17:30:00 UTC Earlham Institute Earlham Institute (EI), Colney Lane, Norwich, United Kingdom Earlham Institute (EI), Colney Lane Norwich Norfolk United Kingdom Bioinformatics Earlham Institute training@earlham.ac.uk [] Researchers workshops_and_courses first_come_first_served Data carpentry
  • EMBL-ABR Non-model Organism Annotation and Curation Cycle, Resources & Tools

    24 October 2016

    Melbourne, Australia

    EMBL-ABR Non-model Organism Annotation and Curation Cycle, Resources & Tools https://tess.elixir-europe.org/events/embl-abr-non-model-organism-annotation-and-curation-cycle-resources-tools-14f0432e-559f-46df-8dff-29d80182b193 A part of the data life-cycle series, this workshop would cover existing non-model organism annotation and curation tools. The workshop would have interactive sessions to engage the attendees in a discussion surrounding the practical use of resources and tools for their projects. Towards the end of the workshop, attendees would have a good understanding of non model annotation and curation in terms of needs and use of existing resources. 2016-10-24 09:00:00 UTC 2016-10-24 00:00:00 UTC VLSCI - University of Melbourne LAB-14, Melbourne, Australia LAB-14 Melbourne Australia Data management Computational biology Bioinformatics [] [] [] workshops_and_courses [] ABRVLSCIlifescienceBioinformatics
  • EMBL-ABR Best Practice workshop: data life-cycle – plants

    25 October 2016

    Melbourne, Australia

    EMBL-ABR Best Practice workshop: data life-cycle – plants https://tess.elixir-europe.org/events/embl-abr-best-practice-workshop-data-life-cycle-plants A part of the data life-cycle series, this workshop would cover best practice data life-cycle for plant researchers. The workshop would provide insights into different phases of data-life cycle. Towards the end of the workshop, attendees would have a good understanding of what is present or missing in terms of open data, Data Commons and FAIR principles for plant research domain in Australia. 2016-10-25 09:00:00 UTC 2016-10-25 00:00:00 UTC VLSCI - University of Melbourne LAB-14, Melbourne, Australia LAB-14 Melbourne Australia Data management Computational biology Bioinformatics [] [] [] workshops_and_courses [] ABRVLSCIlifescienceBioinformatics
  • EMBL-ABR Best Practice workshop: data life-cycle - animals

    26 October 2016

    Melbourne, Australia

    EMBL-ABR Best Practice workshop: data life-cycle - animals https://tess.elixir-europe.org/events/embl-abr-best-practice-workshop-data-life-cycle-animals A part of the data life-cycle series, this workshop would cover best practice data life-cycle for animal researchers. The workshop would provide insights into different phases of data-life cycle. Towards the end of the workshop, attendees would have a good understanding of what is present or missing in terms of open data, Data Commons and FAIR principles for animal research domain in Australia. 2016-10-26 09:00:00 UTC 2016-10-26 00:00:00 UTC VLSCI - University of Melbourne LAB-14, Melbourne, Australia LAB-14 Melbourne Australia Data management Computational chemistry Bioinformatics [] [] [] workshops_and_courses [] ABRVLSCIlifescienceBioinformatics
  • EMBL-ABR Best Practice Workshop: data life-cycle – microbes

    27 October 2016

    Melbourne, Australia

    EMBL-ABR Best Practice Workshop: data life-cycle – microbes https://tess.elixir-europe.org/events/embl-abr-non-model-organism-annotation-and-curation-cycle-resources-tools A part of the data life-cycle series, this workshop would cover best practice data life-cycle for microbial researchers. The workshop would provide insights into different phases of data-life cycle. Towards the end of the workshop, attendees would have a good understanding of what is present or missing in terms of open data, Data Commons and FAIR principles for microbiology research domain in Australia. 2016-10-27 09:00:00 UTC 2016-10-27 00:00:00 UTC VLSCI - University of Melbourne LAB-14, Melbourne, Australia LAB-14 Melbourne Australia Computational biology Data management Bioinformatics [] [] [] workshops_and_courses [] ABRVLSCIlifescienceBioinformatics
  • EMBL-ABR Best Practice Workshop: Data Life Cycle – Health

    28 October 2016

    Melbourne, Australia

    EMBL-ABR Best Practice Workshop: Data Life Cycle – Health https://tess.elixir-europe.org/events/embl-abr-best-practice-workshop-data-life-cycle-health A part of the data life-cycle series, this workshop would cover best practice data life-cycle for health researchers. The workshop would provide insights into different phases of data-life cycle. Towards the end of the workshop, attendees would have a good understanding of what is present or missing in terms of open data, Data Commons and FAIR principles for health research domain in Australia. 2016-10-28 09:00:00 UTC 2016-10-28 00:00:00 UTC VLSCI - University of Melbourne LAB-14, Melbourne, Australia LAB-14 Melbourne Australia Data management Computational biology Bioinformatics [] [] [] workshops_and_courses [] ABRVLSCIlifescienceBioinformatics
  • Introduction to Unix

    3 November 2016

    Melbourne, Australia

    Introduction to Unix https://tess.elixir-europe.org/events/introduction-to-unix This workshop hosted by VLSCI is facilitated by experienced Unix users who will introduce attendees to the fundamental Unix concepts by way of a series of hands-on exercises. Attendees will be guided through the exercises and offered assistance where needed. The workshop is intended for beginners with no prior experience in Unix. Attendees are required to bring their own laptop computers. 2016-11-03 09:00:00 UTC 2016-11-03 00:00:00 UTC VLSCI - University of Melbourne Lab-14, Melbourne, Australia Lab-14 Melbourne Australia Computer science [] [] [] workshops_and_courses [] ABRVLSCI
  • Introduction to High Performance Computing at VLSCI

    3 November 2016

    Melbourne, Australia

    Introduction to High Performance Computing at VLSCI https://tess.elixir-europe.org/events/introduction-to-high-performance-computing-at-vlsci-21b2f7f6-d333-4982-919e-106378d1638c Using High Performance Computing (HPC) resources such as VLSCI in an effective and efficient manner is key to modern research. This workshop hosted by VLSCI will introduce the attendees to High Performance Computing environments and assist them to get on with their research. Attendees are expected to have a basic understanding of Unix, or should have attended an 'Introduction to Unix' workshop in the past. All participants are required to bring their own laptop computers. 2016-11-03 09:00:00 UTC 2016-11-03 00:00:00 UTC VLSCI - University of Melbourne Lab-14, Melbourne, Australia Lab-14 Melbourne Australia Data management Computer science [] [] [] workshops_and_courses [] ABRVLSCI
  • Introduction to the GVL and Galaxy

    7 November 2016

    Melbourne, Australia

    Introduction to the GVL and Galaxy https://tess.elixir-europe.org/events/introduction-to-the-gvl-and-galaxy Galaxy is an open source, web-based platform for accessible, reproducible, and transparent computational biomedical research. It allows users without programming experience to easily specify parameters and run individual tools as well as larger workflows. It also captures run information so that any user can repeat and understand a complete computational analysis. This beginners workshop hosted by VLSCI will introduce Galaxy's interface, tool use, histories, and workflows and get new users of the Genomics Virtual Laboratory up and running. This is a hands-on workshop and attendees should bring their own laptops. 2016-11-07 09:00:00 UTC 2016-11-07 00:00:00 UTC VLSCI - University of Melbourne Lab-14, Melbourne, Australia Lab-14 Melbourne Australia Bioinformatics Biomedical science Genomics [] [] [] workshops_and_courses [] ABRVLSCIBioinformatics
  • EMBL-ABR/GOBLET Hands-on training: RNA-seq data analysis

    14 - 15 November 2016

    Melbourne, Australia

    EMBL-ABR/GOBLET Hands-on training: RNA-seq data analysis https://tess.elixir-europe.org/events/embl-abr-goblet-hands-on-training-rna-seq-data-analysis A one and a half days workshop that covers hands-on introduction to RNA-seq data analysis. The attendees would learn about the theory, tools and file formats involved right from raw RNA sequence to differentially expressed genes. The workshop would have alternating short lectures and hands-on exercises. 2016-11-14 09:00:00 UTC 2016-11-15 00:00:00 UTC VLSCI - University of Melbourne LAB-14, Melbourne, Australia LAB-14 Melbourne Australia Data architecture, analysis and design Data management Computational biology Bioinformatics RNA-Seq [] [] [] meetings_and_conferences [] ABRVLSCIBioinformaticslifescience
  • Introduction to Molecular Modelling & Visualisation for Life Sciences

    29 November 2016

    Melbourne, Australia

    Introduction to Molecular Modelling & Visualisation for Life Sciences https://tess.elixir-europe.org/events/introduction-to-molecular-modelling-visualisation-for-life-sciences-667d4af2-9938-413c-a933-f1dc88712b2e This VLSCI workshop introduces beginners to molecular modelling and visualisation techniques using packages such as VMD and NAMD. The participants will be given practical exercises to visualise molecules as well as learn how to submit jobs to the VLSCI clusters. It is recommended that participants attend Introduction to High Performance Computing at VLSCI prior to this workshop. If a participant is not familiar with using the command line, he/she should also attend the Introduction to Unix workshop. Attendees are requested to bring their laptops with the following programs installed before arriving: VMD (http://www.ks.uiuc.edu/Research/vmd/) Putty (http://www.chiark.greenend.org.uk/~sgtatham/putty/download.html) - only if they have Windows. 2016-11-29 09:00:00 UTC 2016-11-29 00:00:00 UTC VLSCI - University of Melbourne Lab-14, Melbourne, Australia Lab-14 Melbourne Australia Molecular modelling Bioinformatics [] [] [] workshops_and_courses [] ABRVLSCIBioinformatics
  • Intermediate Molecular Modelling & Visualisation for Life Sciences

    29 November 2016

    Melbourne, Australia

    Intermediate Molecular Modelling & Visualisation for Life Sciences https://tess.elixir-europe.org/events/intermediate-molecular-modelling-visualisation-for-life-sciences-e9e6da11-0063-4b6f-aca9-d869e351a110 This workshop is for the intermediate user who is already familiar with molecular modelling and submitting cluster jobs, and is interested in learning more advanced job submission and visualisation techniques. Topics include: advanced job submission scripts; data analysis; and molecular image and movie making. Participants are required to bring their own laptop computers with VMD or PyMol installed. VMD (http://www.ks.uiuc.edu/Research/vmd/) Putty (http://www.chiark.greenend.org.uk/~sgtatham/putty/download.html) - only if the participant has Windows. 2016-11-29 09:00:00 UTC 2016-11-29 00:00:00 UTC VLSCI - University of Melbourne Lab-14, Melbourne, Australia Lab-14 Melbourne Australia Molecular modelling Bioinformatics [] [] [] workshops_and_courses [] ABRVLSCIBioinformatics
  • Software Carpentry - European Molecular Biology Laboratory

    8 - 9 October 2018

    Software Carpentry - European Molecular Biology Laboratory https://tess.elixir-europe.org/events/carpentries-instructor-training Find out more at https://tobyhodges.github.io/2018-10-08-ttt-EMBL/ 2018-10-08 09:00:00 UTC 2018-10-09 00:00:00 UTC Software Carpentry European Molecular Biology Laboratory European Molecular Biology Laboratory Karlsruhe 69117 [] toby.hodges@embl.de The Carpentries [] 40 workshops_and_courses registration_of_interest SoftwareCarpentryData carpentryTtT, Train the Trainer, Educational psychology, cognitive science, teaching practices
  • OpenRiskNet/NanoCommons ontology meeting

    13 - 14 December 2018

    Brussels, Belgium

    OpenRiskNet/NanoCommons ontology meeting https://tess.elixir-europe.org/events/openrisknet-nanocommons-ontology-meeting The goal of this meeting is to get a picture of the ongoing ontology activities in the toxicology area, harmonize these efforts and the developed ontologies therein, and extend the existing toxicology ontology to support OpenRiskNet and NanoCommons tasks. Part of this will be the ontological annotation of OpenRiskNet Application Programming Interfaces (APIs) as used on their cloud. Other goals include extension of the ontology with missing terms (if any), potentially write up guidance documents, and annotation of data sets (possible via OpenRiskNet data APIs). 2018-12-13 13:00:00 UTC 2018-12-14 14:00:00 UTC University of Birmingham office in Brussels, Brussels, Belgium University of Birmingham office in Brussels Brussels Belgium Ontology and terminology Toxicology [] NanoCommonsOpenRiskNetH2020 [] workshops_and_courses [] risk assessmentnanosafetydata annotationservice descriptions
  • ELIXIR Data Carpentry - Ljubljana

    29 - 30 January 2019

    Ljubljana, Slovenia

    Elixir node event
    ELIXIR Data Carpentry - Ljubljana https://tess.elixir-europe.org/events/elixir-data-carpentry-ljubljana **ELIXIR Data Carpentry for Genomics - Ljubljana** **29-30 Jan 2019, Faculty of Medicine, Vrazov trg 2, Ljubljana (Slovenia)** **ELIXIR Data Carpentry for Genomics** is a course intended for all those who would like to learn more about the basics of data processing and data management in the field of genomics. The course will be in English. **The limit of participants is 20.** If there are more applicants than available places, the participants will be selected based on their institutional and geographic background, while also taking into account the time of their registration. The course is free of charge. You can find more info about the course on the [**ELIXIR-SI eLearning Platform (EeLP)**](https://elixir.mf.uni-lj.si/course/view.php?id=44). The course will take place in the computer classroom at the **Institute of Biostatistics and Medical Informatics (IBMI)**, Faculty of Medicine, Vrazov trg 2, Ljubljana. Sessions will be intensive and hands-on, and taught by experienced data carpentry instructors. Instructors will be **Vasilis Lenis (University of Plymouth, UK)** and **Živa Ramšak (ELIXIR Slovenia; National Institute of Biology Ljubljana)**. The course is recommended for anyone who would like to learn more about how to process and manage big scale genomic data. **Program topics:** * Introduction - Presentation of ELIXIR Slovenia and ELIXIR-SI eLearning Platform * Project management in genomics and introduction to cloud computing * Introduction to Linux/Unix command line * Data wrangling and processing for genomics The course is organised by **ELIXIR Slovenia** in collaboration with **ELIXIR Hub** and **Data & Software Carpentry**. 2019-01-29 08:15:00 UTC 2019-01-30 12:30:00 UTC ELIXIR Slovenia, University of Ljubljana, Faculty of Medicine University of Ljubljana, Faculty of Medicine, Institute for Biostatistics and Medical Informatics, Vrazov Trg 2, SI-1000, Ljubljana, Slovenia, Ljubljana, Slovenia University of Ljubljana, Faculty of Medicine, Institute for Biostatistics and Medical Informatics, Vrazov Trg 2, SI-1000, Ljubljana, Slovenia Ljubljana Slovenia SI-1000 Genomics Data management Computer science University of Ljubljana, Faculty of Medicine ELIXIR EXCELERATE Life Science ResearchersPhD studentsMaster students 20 workshops_and_courses registration_of_interest EeLPeLearninggenomicsData carpentry
  • ELIXIR Data Carpentry - University of Milano-Bicocca

    14 - 15 February 2019

    Milano, Italy

    ELIXIR Data Carpentry - University of Milano-Bicocca https://tess.elixir-europe.org/events/elixir-data-carpentry-university-of-milano-bicocca Data Carpentry develops and teaches workshops on the fundamental data skills needed to conduct research. The workshop is aimed at people from any area with little or no prior computational experience who need to develop skills for data organisation in spreadsheets, data cleaning with OpenRefine, data analysis and visualization in Python, data management with SQL. Participants will be encouraged to help one another and to apply what they have learned to their own research problems. Find out more at https://elixir-iib-training.github.io/website/2019/02/14/DC-Milano-Bicocca.html 2019-02-14 09:00:00 UTC 2019-02-15 16:30:00 UTC EXCELERATE ELIXIR-Carpentries University of Milano Bicocca, Milano, Italy University of Milano Bicocca Milano Città Metropolitana di Milano Italy 20126 Ecology Data management Data visualisation University of Milano-Bicocca, Italy gianluca.dellavedova@unimib.it [] People from any area with little or no prior computational experience 30 workshops_and_courses first_come_first_servedregistration_of_interest computer-scienceEcologybioinformaticsmySQLData VisualizationData carpentry
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