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  • 🧭 Cruise and field
    • KPH QGIS cruise planner
    • Procedures at sea
      • Interpreting SAR imagery
    • Storage and logistics
      • NPI Tromsø storage overview
  • 🚢 Shipboard CTD
    • 🌊 Overview of CTD data post-processing
      • 1) Automated batch processing using SeaBird software
      • 2a) Post-processing in Matlab and NetCDF-Creator
      • 2b) Post-processing in Python
    • 📝 Detailed step-by-step recipe for CTD post-processing using NPI tools
    • 🫧 Guide to measuring oxygen from water samples (Winkler titration)
      • Theoretical Background
      • Equipment and reagents
      • Seawater Sampling
      • Titration Procedure
    • 🥼 Guide to measuring laboratory salinity from water samples
      • General notes
      • Overview of the salinometer
      • Collecting samples at sea
      • Preparations for laboratory sampling
      • Laboratory salinometer sampling
      • Finishing up
      • Troubleshooting
    • 🔍 Quality control of CTD salinity data
    • 🧪 Water sampling protocols
      • Chlorophyll & phaeopigments protocol
      • Nutrients sampling protocol
      • Phytoplankton taxonomy sampling protocol
      • POC/PON sampling protocol
  • ⚓ Ocean moorings
    • Mooring data post-processing
      • Mooring data post-processing - Fram Strait guidelines
      • Suggested directory structure - Fram Strait guidelines
    • Mooring operations at sea
    • Calibration of moored instruments
    • Inductive instruments
      • Setup of inductive loops
  • 🔬 Other instruments
    • Overview of oceanographic instruments
      • Instrument categories
      • Instrument costs
    • MSS microstructure profiler
      • MSS deployment
        • MSS deployment checklist
      • MSS setup
      • Troubleshooting
    • Lowered ADCP (LADCP)
      • LADCP deployment checklist
      • LADCP script for master programming and starting
      • LADCP processing recipe
      • Troubleshooting LADCP processing
    • Thermosalinograph CTD and fCO2
      • KPH TSG and fCO2
    • Various gadgets
      • Go-Pro camera
      • Tascam acoustic recorder
  • 🧊 Sea ice
  • 🌐 Numerical Modeling
    • Sigma2 HPC
      • Compiling METROMS on Olivia
      • Tips for working on Sigma2
    • Model applications maintained at NPI
      • Regional FVCOM configuration for the Atlantic sector of the Southern Ocean
  • 💾 Data archiving
    • Data publication
      • Naming and organizing files
        • Suggested file naming and directory structure (from the Fram Strait program)
    • NetCDF file format
      • Resources and guidelines for NetCDF formatting
      • Quality indicators processing_level and QC_indicator
  • 🛠️ Useful stuff
    • Software help
      • Python setup with Miniforge/Mamba (Windows)
      • Git (version control)
        • Git command line Cheat Sheet
    • External resources
    • HavNett - about / contributions
      • About HavNett
      • Contributing to HavNett
        • Submitting an issue
        • Directly contributing content
    • Markdown for HavNett
  • NPIOcean internal GitLab
  • NPIOcean at GitHub
  • ⬇ HavNett offline copy
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  • .md

Sigma2 HPC

Sigma2 HPC#

  • Compiling METROMS on Olivia
  • Tips for working on Sigma2
    • Sharing files on NIRD through OpenDAP
    • Sigma2 data processing tools
    • Creating local python environment and package installing

By Norwegian Polar Institute, Oceanography section

© Copyright 2025, Norwegian Polar Institute, Oceanography section.