h3daemon 0.13.8

HMMER server

Welcome to h3daemon 👋

Command-line for running HMMER server on arm64 and amd64 machines.

🏠 Homepage

⚡️ Requirements

• Python >= 3.9
• Pip
• Homebrew on MacOS (recommended)
• Pipx for Python package management (recommended)

MacOS

Install Python and Pipx:

brew update && brew install python pipx

Ensure that your PATH environment variable is all set:

pipx ensurepath

💡 You might need to close your terminal and reopen it for the changes to take effect.

Ubuntu (and Debian-based distros)

Install Python and Pipx:

sudo apt update && \
    sudo apt install python3 python3-pip python3-venv --yes && \
    python3 -m pip install --user pipx

Ensure that your PATH environment variable is all set:

python3 -m pipx ensurepath

💡 You might need to close your terminal and reopen it for the changes to take effect.

📦 Install

pipx install h3daemon

Usage

 Usage: h3daemon [OPTIONS] COMMAND [ARGS]...

╭─ Options ─────────────────────────────────────────────────────╮
│ --version                                                     │
│ --help             Show this message and exit.                │
╰───────────────────────────────────────────────────────────────╯
╭─ Commands ────────────────────────────────────────────────────╮
│ start                 Start daemon.                           │
│ stop                  Stop daemon.                            │
╰───────────────────────────────────────────────────────────────╯

Example

Download minifam.hmm database:

pipx run blx get \
  fe305d9c09e123f987f49b9056e34c374e085d8831f815cc73d8ea4cdec84960 \
  minifam.hmm

Press it:

pipx run --spec hmmer hmmpress minifam.hmm

Start the daemon to listen on a random (available) port:

h3daemon start minifam.hmm

And stop it:

h3daemon stop minifam.hmm

👤 Author

• Danilo Horta

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