try AWS

[turbomam]

https://docs.aws.amazon.com/kinesisvideostreams/latest/dg/gs-ubuntu.html

[turbomam]

• r7i.4xlarge
• 1000 GB storage on root volume
• apt update/upgrade
• reboot?
• git clone https://github.com/turbomam/biosample-xmldb-sqldb.git
  • may not be great for pushing
• sudo apt install pipx
• pipx install poetry
• pipx ensurepath
  • (pipx completions not working)
• sudo apt install -y make build-essential libssl-dev zlib1g-dev libbz2-dev libreadline-dev libsqlite3-dev wget curl llvm libncurses5-dev libncursesw5-dev xz-utils tk-dev libffi-dev liblzma-dev python3-openssl git
• curl https://pyenv.run | bash

---

# Load pyenv automatically by appending
# the following to 
# ~/.bash_profile if it exists, otherwise ~/.profile (for login shells)
# and ~/.bashrc (for interactive shells) :

export PYENV_ROOT="$HOME/.pyenv"
[[ -d $PYENV_ROOT/bin ]] && export PATH="$PYENV_ROOT/bin:$PATH"
eval "$(pyenv init -)"

# Restart your shell for the changes to take effect.

# Load pyenv-virtualenv automatically by adding
# the following to ~/.bashrc:

eval "$(pyenv virtualenv-init -)"

Implement with copy/paste and

• cat >> ~/.profile
• cat >> ~/.bashrc

---

• pyenv install 3.10.13
• pyenv global 3.10.13

screen (via instance connect?)

[turbomam]

• for pkg in docker.io docker-doc docker-compose docker-compose-v2 podman-docker containerd runc; do sudo apt-get remove $pkg; done
• Install docker with these instructions, including adding the current user to the docker group:
  • https://docs.docker.com/engine/install/ubuntu/

[turbomam]

• sudo apt install glances
• poetry install
• make pre-basex-all
  • watch -d ls -lh biosample-xmldb-sqldb/downloads/
• echo "</BioSampleSet>" >> shared-chunks/biosample_set_from_37000001.xml

[turbomam]

• make basex-all

[turbomam]

• sudo apt-get install postgresql-client
• make postgres-pre-pivot