diff --git a/doc.zih.tu-dresden.de/docs/access/key_fingerprints.md b/doc.zih.tu-dresden.de/docs/access/key_fingerprints.md index 6be427f53bd2247ab94a7abfdad25abfa01742d4..cec0634d6676a914a3694def88ff4298a8f84920 100644 --- a/doc.zih.tu-dresden.de/docs/access/key_fingerprints.md +++ b/doc.zih.tu-dresden.de/docs/access/key_fingerprints.md @@ -1,4 +1,4 @@ -# SSH Key Fingerprints +# Key Fingerprints !!! hint diff --git a/doc.zih.tu-dresden.de/docs/contrib/contribute_browser.md b/doc.zih.tu-dresden.de/docs/contrib/contribute_browser.md index 45e8018d263300c03101f1374b6350ce58a131dd..83bb8c1590409c2f41f61d6f351065e6c8587d0d 100644 --- a/doc.zih.tu-dresden.de/docs/contrib/contribute_browser.md +++ b/doc.zih.tu-dresden.de/docs/contrib/contribute_browser.md @@ -1,4 +1,4 @@ -# Contribution Guide for Browser-based Editing +# Browser-based Editing In the following, it is outlined how to contribute to the [HPC documentation](https://doc.zih.tu-dresden.de/) of diff --git a/doc.zih.tu-dresden.de/docs/contrib/contribute_container.md b/doc.zih.tu-dresden.de/docs/contrib/contribute_container.md index dd44fafa136d63ae80267226f70dc00563507ba3..c69921f3052bd4f0eec50b7bb9465cb61ec3202c 100644 --- a/doc.zih.tu-dresden.de/docs/contrib/contribute_container.md +++ b/doc.zih.tu-dresden.de/docs/contrib/contribute_container.md @@ -1,4 +1,4 @@ -# Contributing Using a Local Clone and a Docker Container +# Work Locally Using Containers ## Git Procedure diff --git a/doc.zih.tu-dresden.de/docs/data_lifecycle/beegfs.md b/doc.zih.tu-dresden.de/docs/data_lifecycle/beegfs.md index 1e2460c3852ffc2a59c8f3a1b8f7c6fcc66b5efb..c4fc5ec242d771957a0e990e4410bb1085e2c193 100644 --- a/doc.zih.tu-dresden.de/docs/data_lifecycle/beegfs.md +++ b/doc.zih.tu-dresden.de/docs/data_lifecycle/beegfs.md @@ -1,4 +1,4 @@ -# BeeGFS +# BeeGFS Filesystems Commands to work with the BeeGFS filesystem. diff --git a/doc.zih.tu-dresden.de/docs/data_lifecycle/preservation_research_data.md b/doc.zih.tu-dresden.de/docs/data_lifecycle/preservation_research_data.md index 79ae1cf00b45f8bf46bc054e1502fc9404417b75..d63529bf283a4f11cdd39e29ba318b7d9fa1bbee 100644 --- a/doc.zih.tu-dresden.de/docs/data_lifecycle/preservation_research_data.md +++ b/doc.zih.tu-dresden.de/docs/data_lifecycle/preservation_research_data.md @@ -1,4 +1,4 @@ -# Long-term Preservation for Research Data +# Preservation for Research Data ## Why should research data be preserved? diff --git a/doc.zih.tu-dresden.de/docs/data_transfer/datamover.md b/doc.zih.tu-dresden.de/docs/data_transfer/datamover.md index 41333949cb352630294ccb3a2ffac7ea65d980e6..bd4e615e2a503a19df547e3b5daf49562c1afe10 100644 --- a/doc.zih.tu-dresden.de/docs/data_transfer/datamover.md +++ b/doc.zih.tu-dresden.de/docs/data_transfer/datamover.md @@ -1,4 +1,4 @@ -# Transferring Files Between ZIH Systems +# Datamover With the **datamover**, we provide a special data transfer machine for transferring data with best transfer speed between the filesystems of ZIH systems. The datamover machine is not accessible diff --git a/doc.zih.tu-dresden.de/docs/data_transfer/overview.md b/doc.zih.tu-dresden.de/docs/data_transfer/overview.md index c2f4fe1e669b17b4f0cdf21c39e4072d4b80fa5d..a8af87cc55814ca0afe5b30193589cf1905ce356 100644 --- a/doc.zih.tu-dresden.de/docs/data_transfer/overview.md +++ b/doc.zih.tu-dresden.de/docs/data_transfer/overview.md @@ -1,6 +1,6 @@ -# Transfer of Data +# Data Transfer -## Moving Data to/from ZIH Systems +## Data Transfer to/from ZIH Systems: Export Nodes There are at least three tools for exchanging data between your local workstation and ZIH systems: `scp`, `rsync`, and `sftp`. Please refer to the offline or online man pages of @@ -12,7 +12,7 @@ No matter what tool you prefer, it is crucial that the **export nodes** are used copy data to/from ZIH systems. Please follow the link to the documentation on [export nodes](export_nodes.md) for further reference and examples. -## Moving Data Inside ZIH Systems: Datamover +## Data Transfer Inside ZIH Systems: Datamover The recommended way for data transfer inside ZIH Systems is the **datamover**. It is a special data transfer machine that provides the best transfer speed. To load, move, copy etc. files from one diff --git a/doc.zih.tu-dresden.de/docs/jobs_and_resources/alpha_centauri.md b/doc.zih.tu-dresden.de/docs/jobs_and_resources/alpha_centauri.md index c2e1bac98c1aeaad9910a98d5b6282df4f3160d7..dadc94855ecc71a229e0ab19b15b6837f2bbf872 100644 --- a/doc.zih.tu-dresden.de/docs/jobs_and_resources/alpha_centauri.md +++ b/doc.zih.tu-dresden.de/docs/jobs_and_resources/alpha_centauri.md @@ -1,6 +1,6 @@ -# Alpha Centauri - Multi-GPU Sub-Cluster +# Alpha Centauri -The sub-cluster "Alpha Centauri" had been installed for AI-related computations (ScaDS.AI). +The multi-GPU sub-cluster "Alpha Centauri" had been installed for AI-related computations (ScaDS.AI). It has 34 nodes, each with: * 8 x NVIDIA A100-SXM4 (40 GB RAM) diff --git a/doc.zih.tu-dresden.de/docs/jobs_and_resources/hardware_overview.md b/doc.zih.tu-dresden.de/docs/jobs_and_resources/hardware_overview.md index 218bd3d4b186efcd583c3fb6c092b4e0dbad3180..c7b6374a41d17d4dcd26d5765b77d98932f6c43a 100644 --- a/doc.zih.tu-dresden.de/docs/jobs_and_resources/hardware_overview.md +++ b/doc.zih.tu-dresden.de/docs/jobs_and_resources/hardware_overview.md @@ -1,6 +1,6 @@ -# ZIH Systems +# HPC Resources -ZIH systems comprises the *High Performance Computing and Storage Complex* and its +HPC resources in ZIH systems comprises the *High Performance Computing and Storage Complex* and its extension *High Performance Computing – Data Analytics*. In total it offers scientists about 60,000 CPU cores and a peak performance of more than 1.5 quadrillion floating point operations per second. The architecture specifically tailored to data-intensive computing, Big Data diff --git a/doc.zih.tu-dresden.de/docs/jobs_and_resources/partitions_and_limits.md b/doc.zih.tu-dresden.de/docs/jobs_and_resources/partitions_and_limits.md index 1b0b7e4343c271fca4782e1de6b9038c9e771895..780d736756d640ea0fbe84fa2227bb2f6884d30c 100644 --- a/doc.zih.tu-dresden.de/docs/jobs_and_resources/partitions_and_limits.md +++ b/doc.zih.tu-dresden.de/docs/jobs_and_resources/partitions_and_limits.md @@ -1,4 +1,4 @@ -# Partitions, Memory and Run Time Limits +# Partitions and Limits There is no such thing as free lunch at ZIH systems. Since, compute nodes are operated in multi-user node by default, jobs of several users can run at the same time at the very same node sharing diff --git a/doc.zih.tu-dresden.de/docs/jobs_and_resources/power9.md b/doc.zih.tu-dresden.de/docs/jobs_and_resources/power9.md index 40c47702446000ecd7403eda1a84c241fa0d00e7..aae23705c391a2c4ab8f275d17d34fa2726a7897 100644 --- a/doc.zih.tu-dresden.de/docs/jobs_and_resources/power9.md +++ b/doc.zih.tu-dresden.de/docs/jobs_and_resources/power9.md @@ -1,4 +1,4 @@ -# IBM Power9 Nodes for Machine Learning +# IBM Power9 Nodes For machine learning, we have 32 IBM AC922 nodes installed with this configuration: diff --git a/doc.zih.tu-dresden.de/docs/software/custom_easy_build_environment.md b/doc.zih.tu-dresden.de/docs/software/custom_easy_build_environment.md index 231ce447b0fa8157ebb9b4a8ea6dd9bb1542fa7b..2fba1e4b6b73ffd61ea86357f636fe88f809ff3c 100644 --- a/doc.zih.tu-dresden.de/docs/software/custom_easy_build_environment.md +++ b/doc.zih.tu-dresden.de/docs/software/custom_easy_build_environment.md @@ -1,4 +1,4 @@ -# EasyBuild +# EasyBuild Modules Sometimes the [modules](modules.md) installed in the cluster are not enough for your purposes and you need some other software or a different version of a software. diff --git a/doc.zih.tu-dresden.de/docs/software/data_analytics_with_python.md b/doc.zih.tu-dresden.de/docs/software/data_analytics_with_python.md index 00ce0c5c4c3ddbd3654161bab69ee0a493cb4350..50d60b1d3c586bfa4a60e18da625a57bf545e375 100644 --- a/doc.zih.tu-dresden.de/docs/software/data_analytics_with_python.md +++ b/doc.zih.tu-dresden.de/docs/software/data_analytics_with_python.md @@ -1,4 +1,4 @@ -# Python for Data Analytics +# Data Analytics with Python Python is a high-level interpreted language widely used in research and science. Using ZIH system allows you to work with Python quicker and more effective. Here, a general introduction to working diff --git a/doc.zih.tu-dresden.de/docs/software/data_analytics_with_r.md b/doc.zih.tu-dresden.de/docs/software/data_analytics_with_r.md index 72224113fdf8a9c6f4727d47771283dc1d0c1baa..b9a665b133e6ece35f4b26dad37516f20e15e6d7 100644 --- a/doc.zih.tu-dresden.de/docs/software/data_analytics_with_r.md +++ b/doc.zih.tu-dresden.de/docs/software/data_analytics_with_r.md @@ -1,4 +1,4 @@ -# R for Data Analytics +# Data Analytics with R [R](https://www.r-project.org/about.html) is a programming language and environment for statistical computing and graphics. It provides a wide variety of statistical (linear and nonlinear modeling, diff --git a/doc.zih.tu-dresden.de/docs/software/licenses.md b/doc.zih.tu-dresden.de/docs/software/licenses.md index 3173cf98a1b9987c87a74e5175fc7746236613d9..aaeec5bd126ae5bac79636ffb8cef090a72c952f 100644 --- a/doc.zih.tu-dresden.de/docs/software/licenses.md +++ b/doc.zih.tu-dresden.de/docs/software/licenses.md @@ -1,4 +1,4 @@ -# Use of External Licenses +# External Licenses It is possible (please [contact the support team](../support/support.md) first) for users to install their own software and use their own license servers, e.g. FlexLM. The outbound IP addresses from diff --git a/doc.zih.tu-dresden.de/docs/software/mpi_usage_error_detection.md b/doc.zih.tu-dresden.de/docs/software/mpi_usage_error_detection.md index b083e80cf9962a01a6580f8b5393912ebd2c3f40..a26a8c6ee9595129b32ee56db2040e7cbb11ca7a 100644 --- a/doc.zih.tu-dresden.de/docs/software/mpi_usage_error_detection.md +++ b/doc.zih.tu-dresden.de/docs/software/mpi_usage_error_detection.md @@ -1,4 +1,4 @@ -# Correctness Checking and Usage Error Detection for MPI Parallel Applications +# MPI Error Detection MPI as the de-facto standard for parallel applications of the message passing paradigm offers more than one hundred different API calls with complex restrictions. As a result, developing diff --git a/doc.zih.tu-dresden.de/docs/software/nanoscale_simulations.md b/doc.zih.tu-dresden.de/docs/software/nanoscale_simulations.md index 7b40b9e480755b099c866f0dec2d9a707ea684af..14018d374df59375fc8ef78f9309f9b9d0ba003a 100644 --- a/doc.zih.tu-dresden.de/docs/software/nanoscale_simulations.md +++ b/doc.zih.tu-dresden.de/docs/software/nanoscale_simulations.md @@ -1,4 +1,4 @@ -# Nanoscale Modeling Tools +# Nanoscale Simulations ## ABINIT diff --git a/doc.zih.tu-dresden.de/docs/software/ngc_containers.md b/doc.zih.tu-dresden.de/docs/software/ngc_containers.md index f19612d9a3310f869a483c20328d51168317552a..18fc2a5b56bb545b31e6118db79a0623b9eb9cf4 100644 --- a/doc.zih.tu-dresden.de/docs/software/ngc_containers.md +++ b/doc.zih.tu-dresden.de/docs/software/ngc_containers.md @@ -1,4 +1,4 @@ -# GPU-accelerated Containers for Deep Learning (NGC Containers) +# NGC Containers A [container](containers.md) is an executable and portable unit of software. On ZIH systems, [Singularity](https://sylabs.io/) is used as a standard container solution. diff --git a/doc.zih.tu-dresden.de/docs/software/perf_tools.md b/doc.zih.tu-dresden.de/docs/software/perf_tools.md index 83398f49cb68a3255e051ae866a3679124559bef..8afac08a87eb3925b6b6ece7c2fa7732b6ec827a 100644 --- a/doc.zih.tu-dresden.de/docs/software/perf_tools.md +++ b/doc.zih.tu-dresden.de/docs/software/perf_tools.md @@ -1,4 +1,6 @@ -# Introduction +# Perf Tools + +## Introduction `perf` consists of two parts: the kernel space implementation and the userland tools. This wiki entry focusses on the latter. These tools are installed on ZIH systems, and others and provides diff --git a/doc.zih.tu-dresden.de/docs/software/pika.md b/doc.zih.tu-dresden.de/docs/software/pika.md index deecced31ce928fcb2347a286d7f13a83ed05d17..3b9cd3fd7ff821f3dc5d76241b46b2645b9fc01b 100644 --- a/doc.zih.tu-dresden.de/docs/software/pika.md +++ b/doc.zih.tu-dresden.de/docs/software/pika.md @@ -1,4 +1,4 @@ -# Performance Analysis of HPC Applications with PIKA +# PIKA PIKA is a hardware performance monitoring stack to identify inefficient HPC jobs. Users of ZIH systems have the possibility to visualize and analyze the efficiency of their jobs via the diff --git a/doc.zih.tu-dresden.de/docs/software/power_ai.md b/doc.zih.tu-dresden.de/docs/software/power_ai.md index b4beda5cec2b8b2e1ede4729df7434b6e8c8e7d5..b5e35eee0cade3e9beaf59315a28e95c8c3c61d5 100644 --- a/doc.zih.tu-dresden.de/docs/software/power_ai.md +++ b/doc.zih.tu-dresden.de/docs/software/power_ai.md @@ -1,4 +1,4 @@ -# PowerAI Documentation Links +# PowerAI There are different documentation sources for users to learn more about the PowerAI Framework for Machine Learning. In the following the links diff --git a/doc.zih.tu-dresden.de/docs/software/private_modules.md b/doc.zih.tu-dresden.de/docs/software/private_modules.md index 4b79463f05988afd689b5fa18bddc758c16dfaa7..56ad32a45d7bbb4ec5d0fa7098f553567ce84a56 100644 --- a/doc.zih.tu-dresden.de/docs/software/private_modules.md +++ b/doc.zih.tu-dresden.de/docs/software/private_modules.md @@ -1,4 +1,4 @@ -# Project and User Private Modules +# Private Modules Private module files allow you to load your own installed software packages into your environment and to handle different versions without getting into conflicts. Private modules can be setup for a diff --git a/doc.zih.tu-dresden.de/mkdocs.yml b/doc.zih.tu-dresden.de/mkdocs.yml index 51885fab70587470746e280a3874831521e96459..62603f564df5cf1e1d1fb23c8ab2571f7bb85615 100644 --- a/doc.zih.tu-dresden.de/mkdocs.yml +++ b/doc.zih.tu-dresden.de/mkdocs.yml @@ -2,21 +2,21 @@ nav: - Home: index.md - Application for Login and Resources: - Overview: application/overview.md - - Terms: application/terms_of_use.md + - Terms of Use: application/terms_of_use.md - Request for Resources: application/request_for_resources.md - Project Request Form: application/project_request_form.md - Project Management: application/project_management.md - Access to ZIH Systems: - Overview: access/overview.md - Connecting with SSH: access/ssh_login.md - - Desktop Visualization: access/desktop_cloud_visualization.md + - Desktop Cloud Visualization (DCV): access/desktop_cloud_visualization.md - Graphical Applications with WebVNC: access/graphical_applications_with_webvnc.md - JupyterHub: - JupyterHub: access/jupyterhub.md - JupyterHub for Teaching: access/jupyterhub_for_teaching.md - Key Fingerprints: access/key_fingerprints.md - Security Restrictions: access/security_restrictions.md - - Transfer of Data: + - Data Transfer: - Overview: data_transfer/overview.md - Datamover: data_transfer/datamover.md - Export Nodes: data_transfer/export_nodes.md @@ -24,8 +24,8 @@ nav: - Overview: software/overview.md - Environment: - Modules: software/modules.md - - Private Modulefiles: software/private_modules.md - - Custom EasyBuild Modules: software/custom_easy_build_environment.md + - Private Modules: software/private_modules.md + - EasyBuild Modules: software/custom_easy_build_environment.md - Python Virtual Environments: software/python_virtual_environments.md - ZSH: software/zsh.md - Containers: @@ -35,9 +35,9 @@ nav: - Virtual Machines: software/virtual_machines.md - NGC Containers: software/ngc_containers.md - Applications: - - Licenses: software/licenses.md + - External Licenses: software/licenses.md - Computational Fluid Dynamics (CFD): software/cfd.md - - Mathematics: software/mathematics.md + - Mathematics Applications: software/mathematics.md - Nanoscale Simulations: software/nanoscale_simulations.md - FEM Software: software/fem_software.md - Visualization: software/visualization.md @@ -62,7 +62,7 @@ nav: - Building Software: software/building_software.md - Compilers: software/compilers.md - GPU Programming: software/gpu_programming.md - - Libraries: software/math_libraries.md + - Mathematics Libraries: software/math_libraries.md - Debugging: software/debuggers.md - MPI Error Detection: software/mpi_usage_error_detection.md - Score-P: software/scorep.md @@ -75,9 +75,9 @@ nav: - Overview: data_lifecycle/overview.md - Filesystems: - Overview: data_lifecycle/file_systems.md - - Permanent File Systems: data_lifecycle/permanent.md - - Lustre: data_lifecycle/lustre.md - - BeeGFS: data_lifecycle/beegfs.md + - Permanent Filesystems: data_lifecycle/permanent.md + - Lustre Filesystems: data_lifecycle/lustre.md + - BeeGFS Filesystems: data_lifecycle/beegfs.md - Warm Archive: data_lifecycle/warm_archive.md - Intermediate Archive: data_lifecycle/intermediate_archive.md - Workspaces: data_lifecycle/workspaces.md @@ -87,7 +87,7 @@ nav: - Overview: jobs_and_resources/overview.md - HPC Resources: - Overview: jobs_and_resources/hardware_overview.md - - AMD Rome Nodes: jobs_and_resources/rome_nodes.md + - Island 7 - AMD Rome Nodes: jobs_and_resources/rome_nodes.md - IBM Power9 Nodes: jobs_and_resources/power9.md - NVMe Storage: jobs_and_resources/nvme_storage.md - Alpha Centauri: jobs_and_resources/alpha_centauri.md @@ -126,7 +126,7 @@ nav: - VampirTrace: archive/vampirtrace.md - Windows Batchjobs: archive/windows_batch.md - Contribute: - - How-To: contrib/howto_contribute.md + - How-To Contribute: contrib/howto_contribute.md - Content Rules: contrib/content_rules.md - Browser-based Editing: contrib/contribute_browser.md - Work Locally Using Containers: contrib/contribute_container.md