### seesapmas11_clean.R ---
## Filename: seesapmas11_clean.R
## Description: Master file for seedlings and saplings on the contours
## Author: Noah Peart
## Created: Mon Jan 18 18:58:38 2016 (-0500)
## Last-Updated: Mon Jan 18 20:00:18 2016 (-0500)
## By: Noah Peart
######################################################################
## 88: measured PIRU
## 89: went back and measured ABBA
## 80's data is offset from 90's (can't combine -- replicate samples of contour)
## Soil data is linked to combinations of CONTNAM/STPACE
keepers = c(
'CONTNAM'='character',
'STPACE'='integer',
'ALONG'='numeric',
'DISUPDN'='numeric',
'TAG'='integer',
'YRTAG'='integer',
'SPEC'='character',
'STAT[0-9]+',
'YRMORT'='integer',
'HT[0-9]+',
'TERM[0-9]+', # terminal condition
'CII[0-9]+',
'SUB[0-9]+', # take the latest and combine
'ASPCL',
'ELEVCL',
'DECM[0-9]+',
## *********************************************************
## Extension growth variables
'STMLEN[0-9]+', # stem length (distance measured along stem)
'MINAGE[0-9]+', # Minimum countable age,
'D1RM[0-9]+', # first distance remaining
'D2RM[0-9]+', # second distance remaining
'EX[0-9]+', # numbers are years going back to the 40s
'PEX[0-9]+', # partial extension growth
## *********************************************************
## *********************************************************
## Neighborhoods of seedlings/saplings (only calculated in 88)
'TCVR88', # total
'NFCVR88', # cover not including focal
'HRB[0-9]+', # 1st, 2nd, 3rd most coverage of neighborhood (components of NFCV)
## *********************************************************
## *********************************************************
## These variables are the constant for each segment/year
## Length along segments that species were counted
'SDSP[0-9]+'='character', # correspond to species
'DSDSP[0-9]+', # Distance measured along segment
'NSDSP[0-9]+', # count of seed/saps measured
## *********************************************************
## Use this to get densities
'SGLEN[0-9]+' # one value, but labelled as '8889'/'9899' - upper/lower segment
)
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