skarabina 0.2.3

Skarabina (dungbeetle): An all purpose 1GC flagger

Skarabina

skarabina: a basic 1GC radio astronomy RFI flagger

Author: Tim Molteno ([e-mail])

Intended to reduce I/O costs by performing the standard flagging during 1GC efficiently, and with low memory requirements. Skarabina is named after the latin name Skarabinae, the genus of many interesting beetles (uncluding the dungbeetle) in Africa.

Install

pip install skarabina

Usage

Barber flagging

Generate a report (in the style of barber).

skarabina --ms foo.ms --barber

Clip and Nan Flagging

This will flag a measurement set, and modify it in-place.

skarabina --ms test.ms --flag-nan --flag-clip [0,100] --apply --clobber

The following will write a new measurement set.

skarabina --ms test.ms --flag-nan --flag-clip [0,100] --apply --clobber --msout bar.ms

Build

Install uv, then sync the project (creates a virtual environment and installs skarabina in editable mode):

uv sync

Build distributables:

uv build

Stimela

skarabina is available as a stimela package. You can include it in your pipeline (after installing skarabina) thusly

_include:
    - (skarabina):
        - skarabina.yml
        
my-recpipe:
    info: "Print a flagging summary using skarabina"
    inputs:
        ms: MS

    steps:
        flag-summary:
            cab: skarabina
            params:
                ms: =recipe.ms
                summary: true