Add mmain and other major updates (#44)

* Move paths to a separate file

* Add mmain reader

* Add a verbosity flag

* Fix imports

* Fix bug

* Rename files

* Return ultimate parents

* Add script to generate mmain

* Remove mmain path

* edit path

* Add mmain path

* Change function name

* Rename function

* Turn off verbose

* Fix list requirement

* Edit init match paths

* Fix init pathing

* Edit paths docs

* Edit dumpdir name

* Rename path

* Fix split paths

* Remove unused import

* Add comment

* Update readme

* remove read mmain

* Rename haloatalogue

* Fix minor bugs

* Update nbs

* Add create directory option

* Move split jobs

* Move spliot jobs

* Remove splitting

* Add import

* Edit script

* Deeper split folder

* Fix paths bug

* Rename catalogue

* Rename Catalogue

* Add new clumpread

* Edit paths

* add knn paths

* Update commenting

* Update imports

* Add more conversions

* Update temp file

* Add a note

* Add catalogue

* Cooment

* Update TODO

* Update script

* add nb

* Update

* pep8

* edit paths & pep8

* Fix knn auto paths

* add paths docs

* Add auto and cross knn paths

* Add new paths

* Simplify tpcf reading

* pep8 patch

* update readme

* Update progress

* pep8

* pep8

* pep8

* pep8

* pep8

* pep8

* pep8

* pep8

* pep8

* pep8

* pep8

* pep8

* pep8

* pep8

* pep8

* Pep 8 and restructure

* add lambda spin

* add clump and halo

* add checks

* Edit halo profile fit

* Update gitignore

* backup script

.gitignore

@@ -17,3 +17,4 @@ Pylians3/*
 scripts/plot_correlation.ipynb
 scripts/*.sh
 venv/
+.trunk/*