Another Japan in the World

Jun Aruga's blog.

i3: window manager

IT

I have an issue that is mouse lag in Gnome 3, Fedora 32. I could not find the solution after checking it. This issue does not happen on other installed window managers KDE Plasma and dwm. And it also did not happen on Gnome 3 in another la…

Install Fedora 32

IT

Note to install Fedora 32 to a laptop. I like the way to install it from the USB bootable media. Go to https://getfedora.org/en/, then check the way https://getfedora.org/en/workstation/download/. Create the USB media Referr this web site.…

Install Miniconda3 on Fedora

IT

Install Miniconda referring the Miniconda and Installing in silient mode. Install /home/root/local/miniconda3-py38-4.8.3 is installed directory in my case. $ wget https://repo.anaconda.com/miniconda/Miniconda3-py38_4.8.3-Linux-x86_64.sh $ …

Desire for big picture - Siddhartha Mukherjee

Let's say that you are at a restaurant, you are hungry. Do you like ordering a food without seeing all the menu? Or you want to order it after seeing all the menu, checking which is the best? The second pattern connects to the desire for s…

DNA sequencing: Standing of the shoulders of giants

Learning materials of DNA sequencing I found the teaching materials of Ben Langmead who is the author of bowtie and bowtie2. This is a great material to learn DNA sequencing. Langmead Lab @ Johns Hopkins University - Teaching Materials: ht…

Florence, Italy

The photos are from the travel last year.

Rome, Italy and Vatican

The photos are from the travel last year. Rome and Vatican.

Budapest, Hungary

The photos are from the travel last year.

Videos: Sequncing and history

Just put interesting videos about the DNA sequencing and the history. Reading DNA - Clive Brown, CTO of Oxford Nanopore Technologies www.youtube.com Broad@15 Talk Series; From bases to bytes (Live Stream) https://www.youtube.com/watch?v=GU…

Toledo, Seville and Arcos de la Frontera, Spain

The photos from months ago. Toledo Seville Arcos de la Frontera

The day of changing the context of capitalism

I think that the important context of the present capitalism is sustainable growth. It is a scaffold of today's education, values and people's behavior in many regions. Growth is an encouraged value in the regions, but it was not always en…

yEd Graph Editor for Linux?

I love the tool yEd Graph Editor. yEd is freely available and runs on all major platforms: Windows, Unix/Linux, and macOS. It's available on Linux too. Is it packaged like FreeMind on Linux? www.yworks.com

Biomakespace to start training for gene editiong and sequencing with MinION

Very exciting news. https://biomake.space/home/blog/mozilla-grant-win-biomakespace-facilitates-accessible-gene-editing-and-dna-sequencing-technology Publicly-available datasets, open hardware, and good open-science practices will be used t…

Madrid, Spain - Business area

Around Nuevos Ministerios metro station, and Chamartín Railway Station are local or business area. The place was not so crowed. Madrid airport was around 16 minutes from Nuevos Ministerios metro station. Maybe at a bookstore in Madrid airp…

Madrid, Spain - Tourist area, and Toledo

Months ago, I traveled Madrid Spain. That time, the route was Madrid, Toledo, Seville, and Arcos de la Frontera. Madrid - Tourist area The Atocha station is the main train station for the tourist. Museum of Ham (Museo del Jamón) is my favo…

RHEL 8, 7 and Fedora container images

IT

Something great is happening.. It's time to add RHEL8, 7 to your applications' CI test case. RHEL8 $ docker run --rm -t registry.access.redhat.com/ubi8 bash -cx "uname -a; cat /etc/os-release" + uname -a Linux b065f4dfb56b 4.4.74-boot2dock…

Cambridge UK

Months ago in Cambridge. ADC Theatre, Corpus Playroom [1] and Botanic Garden. [1] https://www.adctheatre.com/

Install podman & useful podman commands

IT

I would show you how to install podman the alternative docker. The difference between docker and podman is docker: Running the docker daemon to operate the containers. podman: Do not need to run a daemon to operate the containers. As a ini…

How to remove not removed container images & useful docker commands

IT

Before next blog for qemu-user-static. I would write some articles. How to remove not removed container images The subject is that I faced. The reason is after upgrading a docker, the actual storage to manage containers were changed. Then …

qemu-user-static - part 2 register

IT

qemu-user-static enables us to run multi architecture environment such as ARM on x86_64 like this. $ docker run --rm --privileged multiarch/qemu-user-static:register --reset $ docker run --rm -t multiarch/ubuntu-debootstrap:arm64-bionic un…

qemu-user-static - part 1 summary

IT

qemu-user-static [1] is a software to enable qemu [2] consumable to build and run multi architecture (ARM 64-bit, ARM 32-bit, Intel 32-bit and etc) on x86_64 Intel processor environment. If you run docker or a docker compatible software, y…

Install Debian 9 and how to report a bug

IT

I wanted to report a request for feature to bowtie2 package on Debian project Checking and asking how to report a bug to the bug tracking system (= BTS) on the project, it seems 2 ways. One is to send a report by email (https://www.debian.…

South of Spain

This time, Malaga -> Glranada -> Nerja -> Gibraltar and La Linea de la Concepcion -> Malaga Malaga Glranada Nerja Gibraltar and La Linea de la Concepcion Gibraltar is UK. It's interesting! La Linea de la Concepcion is Spain. It's fun and t…

How to use host os directory from chroot (mock) environment.

IT

On Fedora Project's work, a chroot environment is usually used to build and test. The environment is called "mock" environment. As I often forget the way, I save it to this page. There are 2 ways. 1. Using mount --bind Use below command. $…

Travis CI: A better alternative of travis_wait to output the command stdout

IT

I found a better way to run heavy command, seeing a code [1] by chance. If the command does not output log to stdout or stderr for 10 minutes, the job stops. The popular practice to prevent it is like this. But the problem is this command …

London, UK

I visited London, and enjoyed live music at theatre and IMAX 2D. Thriller Live at Lyric Theatre China town Christmas Market at Leicester Square ODEON BFI IMAX near Waterloo Station Hungerford Bridge and Golden Jubilee Bridges

Future of Cambridge, UK

I visited to Cambridge, UK for a Bio IT event. In front of station. Under constraction for a building Apartment COSTA near the station Near The Grafton Centre at PRET (Petty Cury street) ADC Theatre Wasabi Spanish restaurant in Mill Road A…

The European Open Science Cloud was officially launched

When seeing the world, I tend to see it with a frame of Yuval Harari. The consequence of a quite popular futurist predicting the future, and saying the opinion makes the real situation happen affected by the opinion itself. Yuval Harari's …

OpenStack vs AWS: comparing the services

IT

I am comparing between OpenStack [1][2] and AWS services. [3] is all the services of OpenStack. [4] is the comparing document. I have an experience for AWS. But I do not have for OpenStack. The intent to compare those services is to rememb…

Convert Markdown file to PDF file on Mac (2)

IT

Previously I used markdown-pdf. But I found another tool to convert GitHub style PDF mdpdf [1]. And I would prefer it. junaruga.hatenablog.com mdpdf Install $ npm install mdpdf $ which mdpdf /Users/jun.aruga/node_modules/.bin/mdpdf Usage $…