hedvigs / sh.misc

SH.misc

This is a repos for functions often used by Siva Kalyan and Hedvig Skirgård. They mainly concern linguistic data manipulation and related convenient functions to academic research.

IN DEVELOPMENT / WORK IN PROGRESS / PACKAGE VERSIONING

This R-package is not ready for full release yet, it's under development. When it is ready, we will release the first version and then you can refer to package version numbers.

Installing

library(remotes)
remotes::install_github("HedvigS/SH.misc")

library(SH.misc)

sh.misc's Issues

adding CLarbor

Branch: https://github.com/HedvigS/SH_misc/tree/CLarbor_add

To do:

• write parameters etc for the CLarbor functions
• add package call for all non-base functions in CLarbor functions
• write test-scripts with test data

CLarbor controlled groupings

Hiya @skalyan91 . I'm going through out notes and whatnot from the CLarbor stuff. I need your help with teasing out how to explain what we've been calling "controlled" and external variables.

I've made a stab here at portioning the first function of our workflow, the making of the big ol dep graph that starts it all.
https://github.com/HedvigS/SH.misc/blob/CLarbor_add/R/CLarbor_dependency_matrix_cond_MI.R

Can you help me add content on the param obs_group_df that explains better what infotheo::condinformation is doing with the meta-data of the observations please?

reviewing functions

hey @skalyan91 . I have a suggestion. Instead of pushing functions through PRs, we could both push directly to main and make a dedicated review-time for multiple functions. That way, we have a useable beta-version that can be tested sooner, perhaps we'll find bugs that way easier anyway?

adding south-up functions

I think we should find a way to workin the functions over at skalyan91/south-up here. That way they'd be in a package people can install and run. What do you think @skalyan91 ?

installation problems for phylo.d_wrapper

Something is going wrong with the installation of the function phylo.d_wrapper especially. At first I thought it was the example somehow, so I deleted that from the main branch and put it in this new branch., but that didn't help.

Ideas @skalyan91 ?

This is for installation from the main branch:

> remotes::install_github("HedvigS/SH.misc", force = T)
Downloading GitHub repo HedvigS/SH.misc@HEAD
── R CMD build ─────────────────────────────────────────────
✔  checking for file ‘/private/var/folders/2r/drwc5p6n26ncm5cws9qsntrw0000gr/T/Rtmp0UKtrW/remotes15751255b3944/HedvigS-SH.misc-b4ebdbb/DESCRIPTION’ (336ms)
─  preparing ‘SH.misc’:
✔  checking DESCRIPTION meta-information
─  checking for LF line-endings in source and make files and shell scripts
─  checking for empty or unneeded directories
─  building ‘SH.misc_0.0.0.9000.tar.gz’
   
Installing package into ‘/Users/skirgard/Library/R/x86_64/4.3/library’
(as ‘lib’ is unspecified)
* installing *source* package ‘SH.misc’ ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
Note: wrong number of arguments to '/' 
** help
No man pages found in package  ‘SH.misc’ 
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (SH.misc)
> SH.misc::phylo.d_wrapper()
Error: 'phylo.d_wrapper' is not an exported object from 'namespace:SH.misc'