Clean up Dev branch

[slucey]

Lots of stale branches that need to be dealt with below is a list of branches and the date of their latest commit:

• sense_alpha
• lab_savepoint
• lab_563_spring2020 (includes the previous two branches) 9/2/20
• master_R4 6/3/20
• adjust_vectors 6/17/21
• bioen 8/3/21
• gh-pages 10/13/21
• updateVignettes 12/6/21
• lab_563_Spring2022 4/25/22

Last merge of dev to master 4/25/22

• indiseas 6/8/22
• stanza_rollback 7/11/22

Last dev commit 1/13/23

[slucey]

Branches ahead of dev

• split_files 1/13/23
• documentation 1/13/23
• fit_alpha 1/18/23
• sense_beta 1/30/23
• fit_alpha_ebs 7/6/23
• eco_data 7/6/23

[slucey]

Looks like bioen was manually added back using the bioen_merge branch on 11/19/21

[slucey]

@kaydin I assume you want to leave the lab branches as a quick way to reference back to the version used in the class. Is there anything in them that should be merged into dev?

[kaydin]

@slucey yes I was going to suggest keeping the lab ones for reference, in case my class exercises stop working in future. I think I manually moved/cleaned up a few functions from the labs to dev that were globally useful, so nothing needed from the labs that isn't already in dev.

[kaydin]

eco_data is only ahead of dev because a new library version forced an update of RcppExports.cpp. Everything needed is merged into dev so safe to remove that one.

Edit: confirmed eco_data branch safe to delete, and deleted it.

[slucey]

@kaydin Great! Is there anything in master_R4 that need to be merged into dev?

[slucey]

Merging update_vignettes via pull request #67

[slucey]

stanza_rollback is being address via issue #45

There is an open pull request #51 to merge this into dev. Will do this before merging in @rklasky fix.

[slucey]

@kaydin Great! Is there anything in master_R4 that need to be merged into dev?

@kaydin looks like the only thing here is an update to the version of Roxygen. Is this more of a marker for you like the labs?

[slucey]

adjust_vectors was a minor tweak to adjust.scenarios that allows a user to specify a vector of groups to be changed. Also included some NOAA branding for the pkgdown site.

Merging via #68

[slucey]

After pulls #67 and #68 dev will be ready to merge into master and will change version number to 0.1.5. Then we will be ready to pull sense_beta into dev and finish documentation issues. Should quickly move dev with ecosense to master and move Rpath to version 0.2

[kaydin]

Sorry thought I'd replied earlier - master_R4 was a temporary bridge between R versions 3 and 4 due to some library issues during that transition. Nothing here needed now.