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Contributor: Oliver Knodel 

Containerized Serial Crystallography “CrystFEL” VISA workflow

Experiments generate up to 150 TB per day of data saved at the measurement facility. Such large datasets are impractical for users to take home. Subsequent analysis needs to be performed remotely making it attractive for deployment as a cloud-like use case. Involving EOSC in the analysis and...

Scientific topics: crystallography

Keywords: CrystFEL, Serial crystallography, pulsed X-ray beam, VISA

Resource type: workflow

Containerized Serial Crystallography “CrystFEL” VISA workflow https://pan-training.eu/materials/containerized-serial-crystallography-crystfel-visa-workflow Experiments generate up to 150 TB per day of data saved at the measurement facility. Such large datasets are impractical for users to take home. Subsequent analysis needs to be performed remotely making it attractive for deployment as a cloud-like use case. Involving EOSC in the analysis and re-use of this data is an appropriate use case. Serial crystallography is a beam-line technique for collecting information on the structure of a protein without growing large protein crystals. Instead, a large number of small protein crystals are held in a pulsed X-ray beam. In a second step, the series of produced images are used to reconstruct a precise 3-D image of the protein structure. Serial crystallography is the preferred technique for obtaining diffraction data of proteins at room temperature, where radiation damage from the X-ray beam starts rapidly. The standard software for analysing serial crystallography is “CrystFEL”. The proposed workflow was rendered in a standard fashion, which would allow it to be easily adopted by arbitrary systems or also other containerized applications. The only requirements are an Apptainer installation on the system and a Docker or Singularity/Apptainer image of the application, as well as an adjustment of the configuration file for the wrapper script. crystallography CrystFEL, Serial crystallography, pulsed X-ray beam, VISA research data scientist scientific
Active DMPs for Photon and Neutron RIs

This deliverable envisions an integrated aDMP system which supports the (semi-) automated generation of DMPs by maximising reuse of information generated during the research life-cycle and also aiming to support the scientists and other stakeholders by supporting information transfer....

Keywords: expands, wp2-ExPaNDS, DMP, data management plan, data management

Resource type: Document

Active DMPs for Photon and Neutron RIs https://pan-training.eu/materials/active-dmps-for-photon-and-neutron-ris This deliverable envisions an integrated aDMP system which supports the (semi-) automated generation of DMPs by maximising reuse of information generated during the research life-cycle and also aiming to support the scientists and other stakeholders by supporting information transfer. Therefore, a data model for aDMPs focusing on the integration of information that exists before a proposal is submitted and its life-cycle integration is introduced. It relates the data model also to the template created in PaNOSC. expands, wp2-ExPaNDS, DMP, data management plan, data management PaN Community
Training Workflow on Terahertz Spectroscopy at TELBE

The radiation source ELBE (Electron Linac for beams with high Brilliance and low Emittance) at the Helmholtz Centre Dresden Rossendorf (HZDR) can produce several kinds of secondary radiations. THz radiation is one of them and can be used with a typical pulse frequency of 100 kHz as a stimulation...

Scientific topics: spectroscopy, THz photon probe

Keywords: terahertz, Higgs, dataset, data analysis, spectroscopy, FAIR, training, TELBE, photon, metadata, TELBE

Resource type: lesson, workflow, training

Training Workflow on Terahertz Spectroscopy at TELBE https://pan-training.eu/materials/terahertz-spectroscopy-workflow The radiation source ELBE (Electron Linac for beams with high Brilliance and low Emittance) at the Helmholtz Centre Dresden Rossendorf (HZDR) can produce several kinds of secondary radiations. THz radiation is one of them and can be used with a typical pulse frequency of 100 kHz as a stimulation source for elementary low-energy degrees of freedom in matter. In this training workflow brings together background information of the experiment, the facility used, as well as the processing techniques and steps to understand the data generated by the experiment: * The open accessible dataset * The software * Services to execute the analysis spectroscopy THz photon probe terahertz, Higgs, dataset, data analysis, spectroscopy, FAIR, training, TELBE, photon, metadata, TELBE PaN Community beamline users graduate students
Advanced infrastructure for PIDs in Photon and Neutron RIs

This deliverable accumulates results of ExPaNDS works on the topic of persistent identifiers (PIDs) in facilities research. It refers to the substantial effort of persistent identifiers adoption in facilities and in a larger research ecosystem, and provides a general guidance, as well as...

Keywords: persistent identifiers, wp2-ExPaNDS

Resource type: project deliverable

Advanced infrastructure for PIDs in Photon and Neutron RIs https://pan-training.eu/materials/advanced-infrastructure-for-pids-in-photon-and-neutron-ris This deliverable accumulates results of ExPaNDS works on the topic of persistent identifiers (PIDs) in facilities research. It refers to the substantial effort of persistent identifiers adoption in facilities and in a larger research ecosystem, and provides a general guidance, as well as prioritised recommendations for research information practitioners who consider going beyond the current levels of persistent identifiers adoption by photon and neutron research infrastructures. persistent identifiers, wp2-ExPaNDS facility staff scientists
ExPaNDS Promotional Video

ExPaNDS making data available.

Keywords: expands, FAIR, open data, EOSC, wp6-ExPaNDS

Resource type: video

ExPaNDS Promotional Video https://pan-training.eu/materials/expands-promotional-video ExPaNDS making data available. expands, FAIR, open data, EOSC, wp6-ExPaNDS general public