SynchWeb

SynchWeb

Experimental Information Management for Synchrotrons and Large Scale Facilities

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Virtual Machine Setup

SynchWeb1 is the most advanced interface to the ISPyB2 database, it captures virtually all aspects of an experiment and presents them via a friendly web interface. Designed for real-time monitoring of synchrotron experiments and remote access, project evaluation, and long term facility reporting

But I Don't Work In MX?

Full-featured

Coverage For All

For Users

Shipment details Labels for tracking dewar around facility Create air waybill with DHL Shipment contents Which experiment it this for? Track location (internal) Track location (external) Email notification on arrival and departure
shipment
Easily Ship Your Samples and Track Them
Container details Graphical representation of container Declare extra details (unit cell, anomalous scatterer) Automatic validation Easily duplicate samples Details cached in case of navigating away Register other container types
container
Sample Registration
Real-time list of all beamline events Filterable and searchable Beamline parameters Diffraction image viewer Per-image analysis Real-time status of auto and downstream processing results Dedicated grid/mesh scan view with heatmap Diffraction imager viewer with spot profile, ice rings, resolution limits Pop out sample changer at a glance Inner circle shows protein Outer circle shows data collection status (screened, indexed, data, integrated) Possible to colour by integrated resolution
dclist2
Real Time Data Collection and Beamline Event List
Integration results, output file download Downstream results (phasing, molecular replacement, ligand screening) DIMPLE blob images Built in map / model viewer (UglyMol) Reprocess data Reciprocal space viewer
downstream
Auto and Downstream Processing Results
Protein details Protein sequence (for molecular replacement) Associated PDB files for DIMPLE Containers containing this protein Samples for this protein Filterable by status Searchable Sortable by resolution and status
protein
Project Overview and Review
Plate view with image scoring Toggleable data collection status Drop image with history PIMS like hot-keys Region and Point marking Create new fished samples directly into a puck Create data collection plans
protein
Integrated LIMS (Sample Information from Crystallisation to Structure Solution)

For Facility Staff

Staff overview Active visits highlighted See who is coming to site and if they are new See which dewars you are expecting for an experiment Easily jump to commissioning visits
home
Discipline at a Glance
Facility and beamline parameters Webcams On-Axis camera Extended beamline motor and controls values Data collection client log file
Beamline Status
Visits Beam dump Beamline faults Energy scans / MCA spectra Robot loads Data collections (coloured by protein) Beamline parameters for this timespan (energy, beamsize, etc)
View All Events in an Arbitrary Timespan
Profiling of sample changer positions Locate positions causing errors Error overview for all visits Related visit
Detailed Sample Changer Profiling
Fault reporting and allocation of lost beamtime Affected Visit Was beamtime lost? What happened ... and how was it resolved?
Fault Reporting

For Facility Managers

Evaluate each visit an allocation group has Time left over Time not accounted to any other area Time robot was in use Time users were centering samples Time users were waiting for auto indexing Time collecting data Time spent preparing the beamline See how this group behaves on average See how well they are making use of the beamline at different times of day
visitstat
Per Group Visit Evaluation
Compare groups against one another Green shows above average Red shows below average Filter by time span Filter by visit type
groupstat
Allocation Group Comparison
Filterable by visit type See metric changes over time Metric average Download results in csv format
blover
Beamline Performance Metric Review
Is the range of my new monochromater being used? Are users making use of my new CRLs? Do users know we now have a 100hz Pilatus detector?
component
Beamline Parameters Histogrammed by Run
Profiling of screening and auto integration processes See how processing times change run by run See how processing times vary between programs Have my new cluster nodes made a difference?
processstats
Profile How Computing Infrastructure is Coping
See if a PDB was correctly deposited against a beamline Deposition authors and visit users are compared Deposition beamline and visit beamline are compared See how the PDB and local statistics match up See how many depositions come from automatic processing See how depositions are changing year on year
processstats
Check How Depositions Match Up With Beamlines

For Discplines Outside Macromolecular Crystallography

SynchWeb is rapidly expanding to cover non MX disciplines. Small Molecule Crystallography, Powder Diffraction, Tomography, and Electron Microscopy all have basic support and can be used for sample shipping and data collection monitoring.

Powder diffraction 2d diffraction pattern 1d reduction Electron Microscopy Micrograph FFT Drift Plot Real-time status of particle finder and reconstruction Tomography Tomograph
vstat

References

  1. SynchWeb: a modern interface for ISPyB S. Fisher et al., J. Appl. Cryst. (2015). 48, 927-932
  2. ISPyB: an information management system for synchrotron macromolecular crystallography S. Delageniere et al., Bioinformatics (2011) 27 (22): 3186-3192