inst/Updates/LFA34/2024/1.DataImport.r

In LobsterScience/bio.lobster: Lobster Stock Assessment Tools for DFO Maritimes

# data building

require(bio.survey)
require(bio.lobster)
require(devtools)
require(lubridate)
la()
p = bio.lobster::load.environment()
p=list()
p$libs = NULL
fp = file.path(project.datadirectory('bio.lobster'),"analysis",'LFA34Update2024')
dir.create(fp)
la()
p$yrs = 1947:2024
load_all('~/git/bio.survey/')
p$yrs=2024


        # run in windows environment
        #Data dumps
        
        lobster.db("season.dates.redo")

        lobster.db( DS = "logs.redo",  pH=p)   # updated sept 17
        logsInSeason = lobster.db("process.logs.redo")
        lobster.db( DS = 'seasonal.landings.redo', p=p) #static seasonal landings updated sept 17
        nefsc.db( DS = 'odbc.dump.redo',fn.root = file.path(project.datadirectory('bio.lobster'),'data'),p=p)
 

        datayrs=2024
        #had to do these manually using RV_survey_from_ESEtables.r in 2023
        #groundfish.db( DS="gscat.odbc.redo", datayrs=datayrs )
        #groundfish.db( DS="gsdet.odbc.redo", datayrs=datayrs )
        #groundfish.db( DS="gsinf.odbc.redo", datayrs=datayrs )
  
        groundfish.db( DS='gs_trawl_conversions_redo')
	      
        lobster.db( DS = 'seasonal.landings', p=p)
        inf = nefsc.db( DS = 'usinf.clean.redo',fn.root = NULL,p=p)
        ca = nefsc.db( DS = 'uscat.clean.redo',fn.root = NULL,p=p)
        de = nefsc.db( DS = 'usdet.clean.redo',fn.root = NULL,p=p)
        nefsc.db(DS = 'usstrata.area')