From 143394194d535fcfd5dcaa8dcbad98b50f48a7e5 Mon Sep 17 00:00:00 2001
From: Justin Bedo <cu@cua0.org>
Date: Sun, 8 Nov 2020 09:38:01 +1100
Subject: draft HPC slide

---
 pipeline.pdf | Bin 57446 -> 38715 bytes
 slides.tex   |  17 +++++++++++++++++
 slurm.pdf    | Bin 0 -> 131335 bytes
 tex.nix      |   3 +--
 4 files changed, 18 insertions(+), 2 deletions(-)
 create mode 100644 slurm.pdf

diff --git a/pipeline.pdf b/pipeline.pdf
index 23bf273..2866b75 100644
Binary files a/pipeline.pdf and b/pipeline.pdf differ
diff --git a/slides.tex b/slides.tex
index 3b0016f..fe5bccf 100644
--- a/slides.tex
+++ b/slides.tex
@@ -1,5 +1,8 @@
 \documentclass[aspectratio=169]{beamer}
 
+\usepackage{fancyvrb}
+\usepackage{tgcursor}
+
 \usepackage{microtype}
 \usepackage{tikz}
 \usetikzlibrary{fit}
@@ -173,6 +176,19 @@
   \includegraphics[width=\linewidth]{demo-graph}
 \end{frame}
 
+\begin{frame}
+  \frametitle{HPC execution}
+  \begin{minipage}{.3\textwidth}
+  \includegraphics[width=\linewidth]{slurm}
+  \end{minipage}
+  \begin{minipage}{.68\textwidth}
+  \begin{enumerate}
+    \item Easy implementation due to derivation overloading pattern from Nix
+    \item Call \Verb|(bionix.slurm  \{ ... \}).samtools.sort| instead of \Verb|bionix.samtools.sort|
+  \end{enumerate}
+  \end{minipage}
+\end{frame}
+
 \begin{frame}
   \frametitle{Real-world usage at WEHI}
   \begin{enumerate}
@@ -180,6 +196,7 @@
     \item $\geq100$ WGS/WES samples totalling 20 TiB of primary data
     \item SNV calling, neoantigen prediction, structural variants, copy number, mutational signatures, and report generation
     \item CI ensures reports are always up to date and consistent across the cohort
+    \item Processed at Pawsey (Slurm) and WEHI (PBS \& Slurm)
   \end{enumerate}
 \end{frame}
 
diff --git a/slurm.pdf b/slurm.pdf
new file mode 100644
index 0000000..fbe0141
Binary files /dev/null and b/slurm.pdf differ
diff --git a/tex.nix b/tex.nix
index 3206be2..eadaa5e 100644
--- a/tex.nix
+++ b/tex.nix
@@ -13,7 +13,6 @@ texlive.combine {
     needspace newfloat newunicodechar pdftexcmds pgf preprint quoting ragged2e
     relsize rerunfilecheck scalerel stringenc sttools textpos titlesec
     trimspaces url xcolor xkeyval xpatch xstring zref listings oberdiek
-    beamer
-
+    beamer fancyvrb tex-gyre
   ;
 }
-- 
cgit v1.2.3