Summary Computing a PNG image for each of 1,000 PDB file as a cartoon, color-coded by B factor. PyMOL without GUI PyMOL is routinely used by Biologists to illustrate molecules, using the graphical user interface …
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Accessing BOX on macOS with command line
UW personnel has access to Box, a cloud drive to store documents. While the older “Box Sync” application kept a copy of every file and folder on the local computer, the newer “box drive” …
Reformat every other line with paste
Sometimes a very simple command can accomplish amazing tasks. Recently I had a list with alternating entries on every other line with about 200 lines, and lots of uneven text. But I wanted to …
A great Unix tutorial suitable for beginners
…provides a wonderfully well done, easy to understand set of small tutorials, with exercises, each with an accompanying video that should make it easier for beginners that want to learn Unix command line / bash…. To make is faster to navigate the lessons and videos I have combined both into a simple table…
Docker notes – Shell Access to Running Container
In some instances we start a container, but it will default to immediately running a program within and prevent immediate shell access. This is possible since Docker version1.3 Assuming that the container is already running …
Docker notes – Bypass entrypoint
When activated by docker run some docker container immediately start a software within. This can be useful for the author of the image, but for others it may cause issues. Here is one example amongst many, …