From cdbaee83e33ad888c1b891ae46fff064f297b600 Mon Sep 17 00:00:00 2001 From: Christian Meesters Date: Thu, 8 Feb 2024 20:55:12 +0100 Subject: [PATCH] creators/Workflow_Parameterization_for_HPC - added slide to explain file system latency (layout) --- slides/creators/Workflow_Parameterization_for_HPC.tex | 7 ++++++- 1 file changed, 6 insertions(+), 1 deletion(-) diff --git a/slides/creators/Workflow_Parameterization_for_HPC.tex b/slides/creators/Workflow_Parameterization_for_HPC.tex index 8fc17f7..9fb8af2 100644 --- a/slides/creators/Workflow_Parameterization_for_HPC.tex +++ b/slides/creators/Workflow_Parameterization_for_HPC.tex @@ -127,7 +127,8 @@ \section{Parametizing your Workflow - II} \begin{frame} \frametitle{\Interlude{What is File System Latency? II}} \begin{docs}{Background} - Some clusters use NFS (Network File System). There file system latency \emph{can} be an issue.\newline + Some clusters use NFS (Network File System). There, file system latency \emph{can} be an issue.\newline + \pause On parallel file systems, the latency usually is very low. \end{docs} \end{frame} @@ -139,6 +140,10 @@ \subsection{Global Workflow Configuration} %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% \begin{frame}[fragile] \frametitle{\Snakemake{} Profiles} + \begin{hint} + Profiles can shorten your command lines and be an easy remedy for the described issues! + \end{hint} + \pause Two kinds of profiles are supported: \begin{itemize}[<+->] \item A global profile that is defined in a system-wide or user-specific configuration directory (on Linux, this will be \altverb{\~/.config/snakemake} and \altverb{/etc/xdg/snakemake}, you can find the answer for your system via \altverb{snakemake --help}).