Oliver Beckstein

I think we can simplify the example (no need for glob) and add some context: ```reST To read a dump file you can indicate the format with the ``format="LAMMPSDUMP`` keyword...

You don’t need to write code for this task. You should know what MDAnalysis does (ie you should have gone at least through the QuickStart Tutorial and read the 2016...

We have [MDAnalysis.lib.distances.minimize_vectors()](https://docs.mdanalysis.org/2.2.0-dev0/documentation_pages/lib/distances.html#MDAnalysis.lib.distances.minimize_vectors) that provides distance vectors that could be projected. You could use it as the basis for an `AxialRDF` function. I would probably start a fresh analysis class...

Apparently, `cmaps` already exists as a [format specific attribute](https://userguide.mdanalysis.org/stable/topology_system.html#format-specific-attributes). It should be possible [to add it as a topology attribute](https://userguide.mdanalysis.org/stable/topology_system.html#add-topologyattrs). (Given that we have it, then other parsers should read...

I renamed the issue for the specific problem with Merge(). Chances for fixes are better if it's a small, well-characterized problem. For the wider discussion for how to treat cmaps,...

Is this behavior inconsistent between writers? I only had time to look at XYZ. To me it looks as if we should do https://github.com/MDAnalysis/mdanalysis/blob/2c32ed11c1e6b800397f147e4242f7325900b669/package/MDAnalysis/coordinates/XYZ.py#L238 if we detect that the Atomgroup...

Thanks for checking @rafaelpap . I suppose we'll need to have a careful look around the code of the other writers to try to make it consistent.

No, not distance_array but calc_bonds. See [gmx distance](https://manual.gromacs.org/documentation/current/onlinehelp/gmx-distance.html) ...

Could be [calc_bonds()](https://docs.mdanalysis.org/stable/documentation_pages/lib/distances.html#MDAnalysis.lib.distances.calc_bonds) to return distances or the new `minimize_vectors(g1.positions - g2.positions)` to get back vectors, if one wanted to replicate `gmx distance` functionality. Btw, `minimize_vectors()` https://github.com/MDAnalysis/mdanalysis/blob/3a03af01886977aa53d2a43086cae86c45038738/package/MDAnalysis/lib/distances.py#L1565 is missing from...

@hmacdope I un-assigned you from this issue, otherwise GSoC Contributors will wonder if they can pick the issue to work on.