From 71b069aa7d76bfca6dcd420d013bf04ae1cf8883 Mon Sep 17 00:00:00 2001 From: vand <vand@dtu.dk> Date: Wed, 10 Apr 2024 11:19:45 +0200 Subject: [PATCH] Update Readme.md --- Chapter10/Readme.md | 20 +++++++++++++++++--- 1 file changed, 17 insertions(+), 3 deletions(-) diff --git a/Chapter10/Readme.md b/Chapter10/Readme.md index fb4f7e1..2aca961 100644 --- a/Chapter10/Readme.md +++ b/Chapter10/Readme.md @@ -3,17 +3,23 @@ The notebook for the exercise in Chapter 10 is available from here: [Notebook for mini U-net](https://github.com/vedranaa/teaching-notebooks/blob/main/02506_week10_MiniUnet.ipynb) -You can also open it directly in Google Colab from here: +Training the network may take long time, especially without GPU. We therefore sketch several ways of running the notebook with GPU support. + +## Run the notebook on Google Colab + +You can open the notebook in Google Colab from here, and enable GPU : [](https://colab.research.google.com/github/vedranaa/teaching-notebooks/blob/main/02506_week10_MiniUnet.ipynb) ## Run the notebook on DTU Gbar -It is possible to run the notebook on Gbar on an interactive note. This is done by setting up a Python environment. First you should log onto an interactive GPU node such as `voltash` by running the following command on the command line: +You can run the notebook on Gbar on an interactive GPU node. First get to a terminal on the cluster either ssh, ThinLinc client, or browser-based ThinLinc [thinlinc.gbar.dtu.dk](thinlinc.gbar.dtu.dk). Open the terminal (command line). + +Log onto an interactive GPU node such as `voltash` by running the following command on the command line: `voltash -X` -To set up a Python environment, you can use the script `env02506.sh`. You should place the file `env02506.sh` in a folder on the Gbar and then run the command line: +To set up a Python environment, you can use the script `env02506.sh` which we provided for you. You should place the file `env02506.sh` in a folder on the Gbar and then run the command: `source env02506.sh` @@ -30,3 +36,11 @@ Then you should install the packages needed which include: Now you are good to go. You can navigate to the folder that you wish to store the code, download the notebook from the link above, and open a jupyter notebook by typing the following in the command line: `jupyter-notebook` + +## Use QIM platform + +We are working on establishing an easier way of using Gbar functionality which does the steps described above automatically. This is still experimental. +Go to [https://platform.qim.dk/](https://platform.qim.dk/). Log on. Under Tools start Jupyter launcher. Type in your DTU credentials (it still needs to be done twice). Under basic config QIM environment choose `qim3d` (it has the largest number of packages installed). Under advanced config choose HPC que called `gpuqim`. Tick the checkbox Reset SSH tunnel. Click the button `Start jupyter server`. +The platform shold launch your job and a button with `Open Jupyter` should appear, leading you to a jupyter server running in your home directory on the Gbar. + + -- GitLab