feat: admin talk

config/config_Erlangen_Admin.yaml

@@ -0,0 +1,74 @@
+instructor:
+  name: "Dr. Christian Meesters"
+  affiliation: "Johannes Gutenberg Universität Mainz"
+  affiliation2: "NHR SüdWest" # may be empty
+
+layout:
+  beamertheme: "CambridgeUS" # you can choose any, the slides are tested
+                             # with 'CambridgeUS'
+  colortheme: "beaver"       # you can choose any, the slides are tested with
+                             # 'beaver'
+  # choose any preconfigured color or those from the preamble
+  beamercolor_structure:  "fg=UniRot" 
+  beamercolor_title:      "fg=UniRot"
+  beamercolor_title_head: "fg=UniRot"
+
+  beamercolor_block_title: "bg=UniRot!20,fg=darkred"
+  beamercolor_block_body:  "fg=black, bg=plightgrey2"
+
+  beamercolor_block_title_alerted: "fg=white,bg=UniRot"
+  beamercolor_block_title_example: "fg=white,bg=PineGreen!80"
+
+course:
+  # sets the slides aspectratio (if outcommented, the default is 43=4:3)
+  aspectratio: 1609 # - 169 = 16:9 
+  date: "14. Januar 2025" # maybe: "\today"
+  #title: "" # specifiy your title here, else a default is used. 
+  #subtitle: "" # specifiy your subtitle here, else a default is used. 
+  question: "yes" # if set (to any value) the question slide will be shown
+  #               # at chapters with content. If you do not want it, this
+  #               # should be outcommented.
+  # Editors recommendations are a matter of taste and technological
+  # setups (e.g. on-demand setups). Hence, specify an editor-slide,
+  #  here:
+  editorfile: "common/mod_cs_mainz"
+  # The next line indicates the slides explaining
+  # a condarc file on a cluster, copy and adjust
+  # for your cluster.
+  condarcfile: "common/condarc_mogon.tex"
+  # the same for admins:
+  condarc_admins_file: "admin/condarc_mogon.tex"
+  # We provide a common software stack to avoid long
+  # installation sessions.
+  softwarepath: "/lustre/project/nhr-workflow/software_stack"
+  # The following path will indicate a sample workflow for the user part
+  # if it is defined, the slide set will instruct participants to copy
+  # it and adapt its configuration and profile.
+  pathtoworkflow: "/lustre/project/nhr-workflow/workflow"
+  # Alternatively a URL may be indicated. In this case the participants
+  # are instructed to deploy the workflow using snakedeploy.
+  #deploy_url: ""
+  # these are the path names to contain sample data
+  # see the README for explanations.
+  pathtosetup: "/lustre/project/nhr-workflow/tasks"
+  pathtosolutions: "/lustre/project/nhr-workflow/solutions"
+  # after copying the setup path is:
+  tutorialpath: "~/tasks/tutorial"
+  # This is the selected slide to explain the 'Hello World' script
+  # to introduce SLURM. It requires different account and partition
+  # settings on every cluster.
+  hello_world_script: "common/Hello_World_HPC_Mogon_NHR.tex"
+
+cluster:
+  # the cluster name
+  name: "Mogon-NHR"
+  # the cluster distro
+  distro: "Alma-Linux"
+  # the cluster account and default partition
+  account: "nhr-workflow"
+  partition: "smallcpu"
+  # the local and remote storage prefixes on this cluster
+  remote-job-local-storage-prefix: "/localscratch/$SLURM_JOB_ID"
+  local-storage-prefix: "/dev/shm/$USER/snakemake"
+  # display program for SVG files
+  display_program: "display"

images/workflows/pure_SLURM.py

@@ -20,5 +20,6 @@
 ax.spines['right'].set_visible(False)
 ax.spines['bottom'].set_visible(False)
 ax.spines['left'].set_visible(False)
+ax.annotate("lines of code", xy=(10,10), xycoords="figure pixels")
 #plt.show()
 plt.savefig('SLURM_workflow_solution.png', bbox_inches='tight')

slides/Snakemake_HPC_Admins.tex

@@ -16,7 +16,7 @@
 
 \input{common/preamble}
 
-\title[<++course.shorttitle++>]{<+++ if course.title is defined +++><++course.tittle++><+++else+++>Importance of \Snakemake Workflows for Admins<+++endif+++>} 
+\title[<++course.shorttitle++>]{<+++ if course.title is defined +++><++course.tittle++><+++else+++>Importance of \Snakemake Workflows for Admins and HPC-Users<+++endif+++>} 
 
 \subtitle{<+++ if course.subtitle is defined +++><++course.subtitle++><+++else+++>Providing DataAnalytics Service<+++endif+++> - <++course.edition++>} 
 
@@ -43,8 +43,37 @@
 %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
 \include{admin/software_environment}
 
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+\include{admin/actual_work}
+
 %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
 \include{admin/Workflow_Parameterization_for_HPC}
+
+\begin{frame}
+	\frametitle{Upcoming Courses}
+	\begin{columns}[T]
+		\begin{column}{0.5\textwidth}
+			\centering
+			\includegraphics[width=0.7\textwidth]{humor/announcemnt.png}
+			\caption{Me, announcing courses}
+		\end{column}
+
+	\begin{column}{0.5\textwidth}
+		Do you want to learn:
+		\begin{itemize}
+			\item How to create \& publish \Snakemake workflows suitable for HPC clusters?
+			\item Learn how to deploy and adapt $3^{\mathsf{rd}}$-party workflows?
+			\item and more \ldots
+		\end{itemize}
+	    Check out these courses in
+	    \begin{itemize}
+	    	\item \lhref{https://indico.zdv.uni-mainz.de/event/23/}{Mainz, 29. \& 30. Jan.}
+	    	\item \lhref{https://tu-dresden.de/zih/hochleistungsrechnen/nhr-training/bd-hpda/snakemake?set_language=en}{Dresden, 26. \& 27. Feb.}
+	    \end{itemize}
+	\end{column}
+
+	\end{columns}
+\end{frame}
 
 %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
 %\include{admin/Data_Management}

slides/admin/About_Snakemake.tex

@@ -40,7 +40,7 @@ \subsection{\Snakemake and the Workflow Catalogue}
 	\begin{figure}
 		\centering
 		\caption*{\textbf{>1e6} downloads since 2015\newline
-			\textbf{>1300} citations\newline
+			\textbf{>3000} citations\newline
 			\textbf{>7} citations per week since 2021}
 		\includegraphics[width=0.6\textwidth]{Snakemake/paper_wall.png}
 	\end{figure}
@@ -79,8 +79,8 @@ \subsection{\Snakemake and the Workflow Catalogue}
 	\begin{columns}
 		\begin{column}{0.5\textwidth}
 			\begin{itemize}[<+->]
-				\item Extremely feature rich: \lhref{https://snakemake.github.io/snakemake-workflow-catalog/}{over 1800 workflows (mostly bioinformatics)}
-				\item Almost a hundred standardized workflows ready to use (meaning: well documented and with automatic deployment)
+				\item Extremely feature rich: \lhref{https://snakemake.github.io/snakemake-workflow-catalog/}{over 3000 workflows (mostly bioinformatics)}
+				\item Almost three hundred standardized workflows ready to use (meaning: well documented and with automatic deployment)
 				\item Cluster batch systems are supported (and support for various cloud systems, too)
 				\item There is an option to include Nextflow wrappers, too.
 			\end{itemize}
@@ -89,7 +89,7 @@ \subsection{\Snakemake and the Workflow Catalogue}
 			\begin{figure}
 				\includegraphics[width=\textwidth]{Snakemake/Snakemake_Workflow_Catalog.png}
 				\vspace{0.5em}
-				\caption*{Screenshot of the Workflow Catalogue}
+				\caption*{Screenshot of the \lhref{https://snakemake.github.io/snakemake-workflow-catalog/}{Workflow Catalogue}}
 			\end{figure}
 		\end{column}
 	\end{columns}