[Feature Request] Add default */dataset/* lfs tracking

[Hannah-Doerpholz]

Is your feature request related to a problem? Please describe.
When an ARC is newly created using arc init, no .gitattributes file is created. While later running arc sync, files below the git lfs threshold (should be 25 MB atm) get tracked and each file is individually added to a new .gitattributes file. However, we recently saw an instance where 15 Gb worth of files were uploaded to GitLab without being tracked by LFS, because while there were many very small files, in total they amounted to a lot of space.

Describe the solution you'd like
It would be good to automatically add a .gitattributes file to track all dataset files regardless of file size, as it already is with the ARCitect. Essentially, this file should already contain the line **/dataset/** filter=lfs diff=lfs merge=lfs -text.

Describe alternatives you've considered
Going back and performing the steps to rewrite the git history to remove the wrongly committed and pushed files is not optimal to track the already pushed files with LFS later on.

[Hannah-Doerpholz]

Maybe additional information on this. I see that there is already a setting that anything in a /dataset/ folder should be tracked. However, some files in the dataset folder in a recent ARC of our group did definitely not get tracked. Maybe it is a problem with the execution order of commands on arc sync. The log file for the arc sync that pushed some tracked and some untracked files looked like this (I removed/abbreviated file paths for anonymity):

Start ArcCommander 
Start processing command with the arguments:
	Branch:Field "main"
	CommitMessage:Field "add assay data"
	RepositoryAddress:Field ""
 
and the config:
	general.authclientid:80f4fbff13c3a27713860b6e71755fb3cba7adf644cf71a7cfcc9c1f67ac3680
	general.authredirecturi:http://localhost:7890
	general.authscope:openid email profile read_repository write_repository
	general.editor:nano
	general.forceeditor:false
	general.gitlfsbytethreshold:150000000
	general.gitlfsrules:**/dataset/**
	general.rootfolder:.arc
	general.verbosity:2
	general.workdir:<colleagues_ARC_dir>
	assay.files:README.md
	assay.folders:dataset;protocols
	assay.rootfolder:assays
	study.files:README.md
	study.folders:protocols;resources
	study.rootfolder:studies
	isamodel.assay:folder.assay.rootfolder
	isamodel.assayfilename:isa.assay.xlsx
	isamodel.investigationfilename:isa.investigation.xlsx
	isamodel.studyfilename:isa.study.xlsx
	run.rootfolder:runs
	workflow.dockerfile:Dockerfile
	workflow.rootfolder:workflows
 
Start Arc Sync 
Run git config --local --get user.name 
Run git config --global --get user.name 
GIT: <colleages_user_name>
Run git config --local --get user.email 
Run git config --global --get user.email 
GIT: <colleagues_email>
Load .gitattributes 
-----------------------------
Run git lfs track "**/dataset/**" 
GIT: Tracking "**/dataset/**" 
GIT: Pattern '**/dataset/**' matches forbidden file 'assays/yourAssayName/dataset/.gitkeep'. If you would like to track assays/yourAssayName/dataset/.gitkeep, modify '.gitattributes' manually. 
Start tracking files 
Run git lfs track "<long_filepath_1>" 
GIT: Tracking "<long_filepath_1>" 
Run git lfs track "<long_filepath_2>" 
GIT: Tracking "<long_filepath_2>" 
Run git add . 
-----------------------------
Commit tracked files 
git commit -m 'add assay data' 
[main 9ded2a3] add assay data
 877 files changed, 240950 insertions(+)
 create mode 100644 .gitattributes
 rename assays/{yourAssayName => <new_assay_name>}/README.md (100%)
 rename assays/{yourAssayName => <new_assay_name>}/dataset/.gitkeep (100%)
 create mode 100644 <long_filepath_3>
 create mode 100644 <long_filepath_4>
 create mode 100644 <long_filepath_5>
 create mode 100644 <new_assay_name>/isa.assay.xlsx
 rename assays/{yourAssayName => <new_assay_name>}/protocols/.gitkeep (100%)
 create mode 100644 <new_assay_name2>/README.md
 create mode 100644 <new_assay_name2>/dataset/.gitkeep
 create mode 100644 <new_assay_name2>/isa.assay.xlsx
 create mode 100644 <new_assay_name2>/protocols/.gitkeep
 delete mode 100644 <new_assay_name>/isa.assay.xlsx
 rewrite isa.investigation.xlsx (100%)
 rewrite studies/yourStudyName/isa.study.xlsx (100%)
[main 9ded2a3] add assay data
Run git branch -M main 
Start syncing with remote 
Pull 
Run git fetch origin 
Run git pull --rebase origin main 
GIT: From <ARC_address>
GIT:  * branch            main       -> FETCH_HEAD 
GIT: Current branch main is up to date. 
Push 
Run git push -u origin main 

All of the files listed in the second block after commit tracked files are not tracked, even though after creating some of those files, they do also need to be tracked.