User contributions for Davrot
From Master of Neuroscience Wiki
23 October 2025
- 14:5714:57, 23 October 2025 diff hist 0 N File:GIT JUPYTER 22.png No edit summary current
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- 14:5714:57, 23 October 2025 diff hist 0 N File:GIT Jupyter 1.png No edit summary current
- 14:5314:53, 23 October 2025 diff hist +1,684 N Git jupyterlab Created page with "== Setting up the keys == === I. in Jupyter-Lab terminal === none|thumb|800x800px Create Keys # Open Terminal # ssh-keygen -t ed25519 -C "USERNAME@uni-bremen.de" none|thumb|500x500pxnone|thumb|500x500px # git config --global user.name "GIVENNAME SURENAME" # git config --global user.email "USERNAME@uni-bremen.de" # cat .ssh/id_ed25519.pubnone|thumb|500x500px ===..." current Tag: Visual edit: Switched
- 14:5214:52, 23 October 2025 diff hist +20 Main Page No edit summary Tag: Visual edit
- 14:5114:51, 23 October 2025 diff hist +2,637 N Virtuelle System für Docker vorbereiten Created page with "Dies ist die Basis für spätere Docker Container: (Beim Mail-Account und Hostname die entsprechenden Anpassungen vornehmen) apt update apt upgrade apt install git pkg-config libssl-dev curl mc argon2 ca-certificates net-tools install -m 0755 -d /etc/apt/keyrings curl -fsSL https://download.docker.com/linux/ubuntu/gpg -o /etc/apt/keyrings/docker.asc chmod a+r /etc/apt/keyrings/docker.asc echo \ "deb [arch=$(dpkg --print-architecture) signed-by=/etc/apt..."
- 14:5114:51, 23 October 2025 diff hist +2,845 N Notizen zu Cloud-Instanzen und Services Created page with "Um Cloud Instanzen anlegen zu können, benötigt es einen Funktionsaccount bei dem das Feature "Cloud-Instanz anlegen" in den Online Tools aktiviert ist. Über "Cloud-Instanz anlegen" wird dann eine neues virtuelles System angelegt. Danach braucht man typischerweise einen DNS Eintrag https://smbind.zfn.uni-bremen.de/ und ein SSL Server Zertifikat (Online Tools -> Server Zertifikat). * Das virtuelle System für Docker vorbereiten == root Passwort für die Cloud Ins..." current Tag: Visual edit: Switched
- 14:5014:50, 23 October 2025 diff hist +46 Main Page No edit summary Tag: Visual edit
- 14:3614:36, 23 October 2025 diff hist +5 Torchrun for multi-node but single GPU -- checking for network problems No edit summary current Tag: Visual edit
- 14:3614:36, 23 October 2025 diff hist +6,104 N Torchrun for multi-node but single GPU -- checking for network problems Created page with "Questions to [mailto:davrot@uni-bremen.de David Rotermund] This is not a tutorial on how to use DistributedDataParallel. We use only three of the four elements to use: * [https://pytorch.org/docs/stable/distributed.html#torch.distributed.init_process_group distributed.init_process_group] * [https://pytorch.org/docs/stable/generated/torch.nn.parallel.DistributedDataParallel.html#torch.nn.parallel.DistributedDataParallel DistributedDataParallel] * [https://pytorch.org/doc..." Tag: Visual edit
- 14:3514:35, 23 October 2025 diff hist +694 N Check if the port for torchrun is open via ncat Created page with "Questions to [mailto:davrot@uni-bremen.de David Rotermund] This is my script (connection_test.sh) that tests if a connection between two computer of a given port is possible: You need the master_ip and master_port:<syntaxhighlight lang="shell">master_ip="10.10.10.10" master_port="40001" python_file="main.py" ip_check=`ip addr | grep $master_ip | wc -l` if $ip_check == "1" then echo "Master" echo "OK OK OK OK OK OK OK" | ncat -l -p $master_port else..." current Tag: Visual edit
- 14:3514:35, 23 October 2025 diff hist +2,517 N Dnf and error: rpmdbNextIterator: skipping Created page with "Questions to [mailto:davrot@uni-bremen.de David Rotermund] If we do<syntaxhighlight lang="shell">dnf -y update</syntaxhighlight>then we get this error message:<syntaxhighlight lang="shell">error: rpmdbNextIterator: skipping h# 36674 Header RSA signature: BAD (header tag 268: invalid OpenPGP signature: Parsing an OpenPGP packet: Failed to parse Signature Packet because: Signature appears to be created by a non-conformant OpenPGP implementation, see <https://gi..." current Tag: Visual edit
- 14:3414:34, 23 October 2025 diff hist +2,644 N System upgrades with dnf and what to do if it failes Created page with "Questions to [mailto:davrot@uni-bremen.de David Rotermund] Before starting, you need to install the dnf-plugin-system-upgrade package.<syntaxhighlight lang="shell">dnf install dnf-plugin-system-upgrade</syntaxhighlight>After that, this is normally enough (example for 37 -> 38):<syntaxhighlight lang="shell">dnf -y system-upgrade download --refresh --releasever=38 --allowerasing --best --skip-broken 2> error.log ; dnf system-upgrade reboot cat error.log | grep -v "^N..." current Tag: Visual edit
- 14:3314:33, 23 October 2025 diff hist +3,024 N When a normal dnf update fails Created page with "Questions to [mailto:davrot@uni-bremen.de David Rotermund] Let us assume the dnf update inbetween. You lost the remote connection to the computer where the update was running or systemd oom killed the dnf task. Concerning systemd-oomd, you turn it off via:<syntaxhighlight lang="shell">systemctl disable --now systemd-oomd</syntaxhighlight>Now you are stuck in dnf limbo. How to get out of it with less effort as possible? == Try 0 == If you can do this without an error t..." current Tag: Visual edit
- 14:3314:33, 23 October 2025 diff hist +325 N Computer admin tutorials Created page with "Linux - Fedora * When a normal dnf update fails * System upgrades with dnf and what to do if it failes * dnf and error: rpmdbNextIterator: skipping Linux and PyTorch distributed: * Check if the port for torchrun is open via ncat * torchrun for multi-node but single GPU -- checking for network problems" current Tag: Visual edit
- 14:3014:30, 23 October 2025 diff hist +42 Main Page No edit summary Tag: Visual edit
- 14:2914:29, 23 October 2025 diff hist 0 N File:2022-04-16 00-02.png No edit summary current
- 14:2914:29, 23 October 2025 diff hist 0 N File:2022-04-16 00-01.png No edit summary current
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- 14:2814:28, 23 October 2025 diff hist 0 N File:2022-04-15 23-50.png No edit summary current
- 14:2814:28, 23 October 2025 diff hist +123 Differential Equations →Runge-Kutta Method current Tag: Visual edit
- 14:2714:27, 23 October 2025 diff hist 0 N File:2022-04-15 23-45.png No edit summary current
- 14:2614:26, 23 October 2025 diff hist +66 Differential Equations →Example: The Planar Pendulum Tag: Visual edit
- 14:2514:25, 23 October 2025 diff hist +39 Differential Equations →Example: The Planar Pendulum Tag: Visual edit
- 14:2314:23, 23 October 2025 diff hist 0 N File:2022-04-15 23-36.png No edit summary current
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- 14:2314:23, 23 October 2025 diff hist 0 N File:2022-04-15 23-30.png No edit summary current
- 14:2214:22, 23 October 2025 diff hist +25,836 N Differential Equations Created page with "Questions to [mailto:davrot@uni-bremen.de David Rotermund] ''By Jan Wiersig, modified by Udo Ernst and translated into English by Daniel Harnack. David Rotermund replaced the Matlab code with Python code.'' == Ordinary Differential Equations == In many fields of science, problems occur where one or several quantities vary dependent on time, e.g. oscillations or decay processes. The description of these processes can be formalized by differential equations. As a simple..." Tag: Visual edit
- 14:2214:22, 23 October 2025 diff hist 0 N File:2022-04-15 21-14.png No edit summary current
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- 14:2014:20, 23 October 2025 diff hist 0 N File:2022-04-15 21-01.png No edit summary current
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- 14:2014:20, 23 October 2025 diff hist +16,070 N Integration and Differentiation Created page with "Questions to [mailto:davrot@uni-bremen.de David Rotermund] ''By Jan Wiersig, modified by Udo Ernst and translated into English by Daniel Harnack. David Rotermund replaced the Matlab code with Python code.'' == Numerical Integration == In many cases, the antidervative can not be expressed in closed form via standard functions. This makes numerical methods for the approximation of the antiderivative necessary (‘quadrature’). The intention of this chapter is to introd..." current Tag: Visual edit
- 14:1814:18, 23 October 2025 diff hist −1,316 Making a matrix from numerical ranges No edit summary current Tag: Visual edit
- 14:1714:17, 23 October 2025 diff hist +5,162 N Making a new matrix Created page with "Making a new matrix… Questions to [mailto:davrot@uni-bremen.de David Rotermund] Using '''import numpy as np''' is the standard. == Simple example – new [https://numpy.org/doc/stable/reference/generated/numpy.zeros.html np.zeros()] == Define the size of your new matrix with a tuple, e.g.<syntaxhighlight lang="python">M = numpy.zeros((DIM_0, DIM_1, DIM_2, …))</syntaxhighlight> === 1d === <syntaxhighlight lang="python">import numpy as np M = np.zeros((2)) prin..." current Tag: Visual edit: Switched
- 14:1714:17, 23 October 2025 diff hist +25 Python Tutorial →Numpy: The Basics of the basics Tag: Visual edit
- 14:0814:08, 23 October 2025 diff hist 0 N File:2022-04-16 01-20.png No edit summary current
- 14:0814:08, 23 October 2025 diff hist 0 N File:2022-04-16 01-13.png No edit summary current
- 14:0714:07, 23 October 2025 diff hist 0 N File:2022-04-16 01-10.png No edit summary current
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- 14:0614:06, 23 October 2025 diff hist 0 N File:2022-04-16 01-01.png No edit summary current
- 14:0614:06, 23 October 2025 diff hist 0 N File:2022-04-16 00-43.png No edit summary current
- 14:0614:06, 23 October 2025 diff hist +41,600 N Matlab Data Analysis Created page with "Questions to [mailto:davrot@uni-bremen.de David Rotermund] ''By Jan Wiersig, modified by Udo Ernst and translated into English by Daniel Harnack.'' Three aspects of data analysis shall be covered in this chapter: spectral analysis via the Fourier transformation, generation of random numbers and working with probability distributions, and the elementary methods to fit models to measured data. == Fourier Analysis and Filter Operations == The Fourier analysis is the most..." current Tag: Visual edit
- 14:0514:05, 23 October 2025 diff hist +21,740 N Vectorization and Vector Calculus in Matlab Created page with "Questions to [mailto:davrot@uni-bremen.de David Rotermund] ''By Jan Wiersig, modified by Udo Ernst and translated into English by Daniel Harnack.'' A great advantage of Matlab is that all variables are matrices (or, more general, arrays). The benefits of this principle are manifold: They encompass the simplicity of the syntax to formulate complex mathematical operations, avoidance of tedious for-loops and optimization of internal processing of huge amounts of data res..." current Tag: Visual edit
- 13:5913:59, 23 October 2025 diff hist 0 N File:2022-04-15 17-12.png No edit summary current