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EMC2024 HyperSpy Workshop

Training material used during the 2024 HyperSpy Workshop at the European Microscopy Congress 2024 in Copenhagen.

✨ Try it in your browser ✨

(Not working for the pyxem and eXSpy notebooks)

➡️ https://francisco-dlp.github.io/EMC2024_HyperSpy_Workshop_jupyterlite/

Venue

Haderup auditoriet, Panum Instituttet, Blegdamsvej 3, 2200 Kbh. N. (Careful, not CFIM, but Haderup auditoriet).

Agenda

The workshop will take place from 9:00 to 17:00 CEST on Sunday the 25th of September.

Time Activity Presenter
8:30-9:00 Welcome coffee/tea
9:00-9:15 Introduction talk Francisco de la Peña
9:15-10:30 1. Getting started Magnus Nord
10:30-10:45 Coffee break
10:45-11:30 2. Decomposition and BSS Francisco de la Peña
11:30-12:15 3. Curve fitting Francisco de la Peña
12:15-13:00 4. EDX with eXSpy Katherine MacArthur
13:00-13:45 Lunch break
13:45-14:30 5. EELS with eXSpy Francisco de la Peña
14:30-15:15 6. Cathodoluminescence with LumiSpy Gunnar Kusch
15:15-15:30 Coffee break
15:30-16:15 7. Lazy signals for Big Data Magnus Nord
16:15-17:00 8. 4D-STEM with Pyxem Magnus Nord

The numbered activities correspond to the tutorials in the folders of this repository.

Instructors

  • Francisco de la Peña (University of Lille)
  • Gunnar Kusch (University of Cambridge)
  • Håkon Wiik Ånes (xnovotech)
  • Hedda Christine Soland (Lund University)
  • Katherine MacArthur (Oxford Instruments)
  • Kristian Tveitstol (NTNU)
  • Magnus Nord (NTNU)
  • Sivert J.V. Dagenborg (NTNU)

Downloading large files

Download the zip-file from this link: https://filesender.sikt.no/?s=download&token=000ee6a7-008e-4a63-aada-67706ef762bc

Software installation

To use the Jupyter Notebooks in this repository, you need to install some software packages first. It installation instructions for beginners and advanced users can be found below.

Simple installation instructions (best for Python beginners)

The easiest way to install all the software required to run the Jupyter Notebooks in this repository is to install the HyperSpy Bundle that you can download from here.

Advanced installation instructions (for advanced users)

If you prefer to customize your installation, we suggest installing a conda distribution (we suggest MiniForge) and install all the required Python packages in a dedicated environment executing the following commands in a terminal (the conda prompt in Windows):

conda install nb_conda_kernels jupyterlab start_jupyter_cm ipympl -c conda-forge
conda create -n hyperspy_EMC2024 python=3.11 hyperspy pyxem ipympl exspy lumispy ipykernel -c conda-forge

To add Jupyter to the context menu of your file browser execute the following command:

start_jupyter_cm

To use HyperSpy in JupyterLab, start Jupyter Lab and choose the Python [conda env:hyperspy_EMC2024] kernel. Alternatively, start JupyterLab from the hyperspy_EMC2024 environment as follows:

conda activate hyperspy_EMC2024
jupyter lab