First: Principles

Ramblings of a software developer with a degree in bioinformatics. Agile development mixed with DNA sequencing - what could go wrong?

Sunday, May 14, 2023

College and Walnut survey responses.

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The city is planning another study of College and Walnut streets. These are two streets through the middle of downtown Bloomington which wer...
Saturday, March 04, 2023

New "No Turn On Red" signs posted in downtown Bloomington

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In 2021, Indiana University law school student Purva Sethi was attempting to cross a street in downtown Bloomington. A driver attempting to...
Wednesday, December 14, 2022

New Leaf, New Life – Statement on a New Jail

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 The Bloomingtonian published a press release from New Leaf, New Life on the new jail being planned in Monroe County. Their comments: A bigg...
Friday, December 09, 2022

Reporting bias against scooters

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  Here's what happened: On September 18, 2022, Madelyn Howard, heavily intoxicated, came cruising in her Mercedes northbound on Walnut S...
Tuesday, November 29, 2022

The High Cost of Free Black Friday Parking

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On this Giving Tuesday, I heard a plug for a donation from my local public radio station, WFIU. As I was getting out my wallet to send somet...
Monday, March 29, 2021

Limit CPU/Memory When using Docker

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After having trouble with the Singularity Pull command on a computing cluster, I decided it might be easier to download the image via Docke...
Thursday, February 25, 2021

Including config.h in every file in Visual Studio

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Rather than explicitly including a header file in every source file, I like to use gcc's - include flag to add a config.h file, a file h...
Tuesday, October 20, 2020

Julia on a multi-user system

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Had occasion to install Julia  on a multi-user system today. I downloaded the tarball to my own directory and ran Make. The instructions say...
Tuesday, October 13, 2020

WSL permissions bits

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Conflicts between Linux permissions and Windows permissions are a perennial problem for people who switch back and forth between WSL and Win...
Thursday, September 03, 2020

Research Computing and Data Capabilities Model

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The capabilities model allow an institution to evaluate how well it supports various data and research requirements. https://carcc.org/2020/...
Friday, August 21, 2020

Traversing a graph database with Gremlin

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This is an invaluable tutorial on how to use the Gremlin query language to get results from a graph database. For some reason, all the inter...
Thursday, July 23, 2020

GDB in threaded code

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GDB ( https://www.gnu.org/software/gdb/  ) is a handy way to debug command line applications. But in the case of applications that are runni...
Sunday, July 19, 2020

Creating a Hyperbook in Microsoft Word

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When someone creates a document they'll possibly set up a table of contents which conveniently links to the chapter headings they've...
Thursday, July 02, 2020

Force-closing an SSH connection

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On occasion when I'm using SSH to connect to a remote server, I run an application that hangs. If the terminal's running inside a GU...
Friday, June 05, 2020

Downloading files from Google Cloud

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In doing some testing with GATK 4 , I found myself in need of downloading files from Google Cloud. Google Cloud likes to use URL's that...
Friday, May 15, 2020

Github offers successor options

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Github is putting some thought into what happens to to your repositories if you're "unable" to manage them - a kind way of say...
Thursday, April 30, 2020

Covid-19 infections by county, rate of increase

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So this image shows rate of increase of the number of cases on a daily basis. It's not as smooth as I would like.
Wednesday, April 29, 2020

Generating sequentially increasing values in C++

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Say you need to generate a sequence, in C++, simply consisting of the first so many integers, like, 1,2,3,4,5. With a little programming e...
Saturday, April 11, 2020

Command Line tips from CLI Magic

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Tips for working with the command line from CLI magic . I like this one to s how all listening TCP/UDP ports for the current user: $ lsof ...
Wednesday, April 01, 2020

Covid-19 infections by county, over time

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This is a visualization choropleth I put together of Covid-19 infections for each county over time. It's based on the NY Times data set...
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