open source at Era7.tex

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\usepackage{booktabs}
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\title{era7 bionformatics}
\subtitle{Aλhambra day}
\author{Eduardo Pareja-Tobes, CTO}
\date{2019-05-06}

\begin{document}
\maketitle


% 
\hypertarget{era7}{%
\section{era7?}\label{era7}}

\begin{frame}{%
\protect\hypertarget{the-company-i}{%
The Company I}}

\begin{itemize}
\tightlist
\item
  Founded in \textbf{2006}. Granada, Cambridge MA
\item
  \emph{Biological} \textbf{data analysis} \emph{Genomics, NGS}
\item
  \emph{Wet lab} too: Sequencing
\item
  \textbf{Team} mix of Biology, IT, Maths backgrounds
\end{itemize}

\end{frame}

\begin{frame}{%
\protect\hypertarget{the-company-ii}{%
The Company II}}

\begin{itemize}
\tightlist
\item
  \textbf{Research} Bioinformatics, Biology
\item
  \textbf{100\% Open Source} \emph{AGPLv3}, \textbf{no} dual licensing
\item
  \textbf{Cloud Computing} \emph{AWS}, running on it since
  \textasciitilde{}2007
\end{itemize}

\end{frame}

\hypertarget{software}{%
\section{Software}\label{software}}

\begin{frame}{%
\protect\hypertarget{data-analysis}{%
Data Analysis}}

\begin{itemize}
\tightlist
\item
  \emph{Algorithm} design and implementation
\item
  Low-level DNA sequence analysis
\item
  AWS deployment
\end{itemize}

\end{frame}

\begin{frame}{%
\protect\hypertarget{graph-databases}{%
Graph Databases}}

\begin{itemize}
\tightlist
\item
  \textbf{Bio4j}: since 2008. Graphs for biological data.
\item
  strongly typed graph query language
\item
  Working on our own graph data engine
\end{itemize}

\end{frame}

\begin{frame}{%
\protect\hypertarget{other}{%
Other}}

\begin{itemize}
\tightlist
\item
  \textbf{Webapps}: Mostly for clients using our services.
\item
  \textbf{Elm} client-side, datavis
\end{itemize}

\end{frame}

\hypertarget{scala}{%
\section{Scala}\label{scala}}

\begin{frame}{%
\protect\hypertarget{use}{%
Use}}

In production since Scala 2.7/2.8 \textasciitilde{}2010. 9 years of
experience. We have used it for basically everything:

\end{frame}

\begin{frame}{%
\protect\hypertarget{use-ii}{%
Use II}}

\begin{itemize}
\tightlist
\item
  Data Analysis low-level code
\item
  Language/eDSL implementation (graph data query languages)
\item
  Generic Libraries (ohnosequences/cosas, ohnosequences/stuff, \ldots{})
\item
  Infrastructure (AWS, mostly EC2, S3, SQS, DynamoDB)
\item
  Web Applications (Play)
\end{itemize}

\end{frame}

\begin{frame}{%
\protect\hypertarget{why}{%
Why}}

Team had been working in Java before; FP obvious given team background.
JVM interop a plus (Graph Databases, good AWS support, etc).

\end{frame}

\begin{frame}{%
\protect\hypertarget{learning-scala}{%
Learning Scala}}

Training people has been really hard.

\begin{itemize}
\tightlist
\item
  \emph{Which} Scala?
\item
  Corner cases everywhere
\item
  No good docs anywhere
\item
  \ldots{}
\end{itemize}

\end{frame}

\begin{frame}{%
\protect\hypertarget{happy}{%
Happy?}}

Not really. Currently using it only as a better Java. No time for going
into much detail though.

\end{frame}

\begin{frame}{%
\protect\hypertarget{performance}{%
Performance}}

\begin{itemize}
\tightlist
\item
  awful collections
\item
  really hard to avoid object creation
\item
  generics and fast: pick one (specialization = more bugs)
\item
  value classes = more bugs, no real value
\item
  \ldots{}
\end{itemize}

\end{frame}

\begin{frame}{%
\protect\hypertarget{as-a-better-java}{%
As a better Java}}

Nicer syntax, but\ldots{} mostly that

\begin{itemize}
\tightlist
\item
  interop actually not that good
\item
  Explosion of features/patterns confusing
\item
  Need to know Java anyway
\item
  Java (minus syntax) really close to Java wrt FP
\end{itemize}

Thinking about moving to Kotlin (web apps, infrastructure) and F\# (data
analysis).

\end{frame}

\begin{frame}{%
\protect\hypertarget{as-an-expressive-language}{%
As an Expressive Language}}

\begin{itemize}
\tightlist
\item
  Bugs everywhere
\item
  Type inference is awful
\item
  fake dependent types: more problems than what they solve
\item
  Scala3/Dotty not looking good (dropping type projections, focus on
  singleton types, \ldots{})
\end{itemize}

Since a year ago doing everything in \textbf{Idris} (compilers for graph
data languages, distributed graph DB, \ldots{})

\end{frame}

\begin{frame}{%
\protect\hypertarget{hiring}{%
Hiring?}}

We’re \emph{always} hiring.

\begin{itemize}
\tightlist
\item
  Languages, qualifications not important
\item
  skills, interest, willingness to learn –critical
\end{itemize}

Thank you!

\end{frame}

\end{document}