Strange shell error when using custom geometry

[rob-p]

Q : When I use custom geometry in alevin (e.g. --bc-geometry), salmon doesn't run properly and I get a strange error from the shell (e.g. salmon: no match).

A: This is due to the way that certain shells escape the syntax used in the custom geometry specifications. You can avoid this escaping behavior by wrapping your specification strings in ". For example, instead of --bc-geometry 2[8-16] do --bc-geometry "2[8-16]". This will prevent the shell from attempting to parse / escape your geometry format specification.