manics

SSH agent forwarding and screen

When connecting to a remote server via SSH it is often convenient to use SSH agent forwarding so that you don't need a separate keypair on that server for connecting to further servers.

This is enabled by adding the

ForwardAgent yes

option to any of your Host entries in ~/.ssh/config (or alternatively with the -A option). Don't set this option in a wildcard Host * section since any user on the remote server that can bypass file permissions can now als use keys loaded in your SSH agent. So only use this with hosts you trust.

manics

IDR Release Stats

Moved to https://github.com/microscopepony/idr-release-stats

manics

Run a Jupyter Notebook on BinderHub non-interactively from the command line

The notebook should contain a cell starting with # Parameters:

Example:

./binderhub-exec.py \
    gist/manics/421f2927bb1dbdbc00754a7669eb3f69/master \
    idr-image.ipynb \

IMAGE_ID=4495402

manics

Connect to OMERO, passing parameters as URL query parameters

This notebook requires the parameters host, username, passwd

If you already have a notebook opened you can pass the parameters by adding this query string to the URL in your browser:

?host='HOST'&username='USERNAME'&passwd='PASSWD'

or

manics

IDR Montage

Create a montage of IDR thumbnails.

Moved to https://github.com/microscopepony/idr-montage.

manics

manics

IDR Tara Oceans Geospatial data

This notebook shows how to plot geospatial metadata attached to the samples gathered by the Tara Oceans project.

Moved to https://github.com/microscopepony/idr0015-tara-oceans-geospatial.

manics

JupyterHub LDAP user id example

This example has moved to https://github.com/manics/zero-to-jupyterhub-k8s-examples/tree/main/ldap-singleuser

manics

mybinder/repo2docker PostgreSQL server

Example mybinder repo with a built-in PostgreSQL server.

manics

#!/usr/bin/env python
# Convert the output of `lsof -F` into PID USER CMD OBJ
import sys


rs = []
pid = -1
cmd = ''
user = ''
for line in sys.stdin: