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235
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aaronmk
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os = $(shell uname)
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224
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aaronmk
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| 3 |
235
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aaronmk
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SED = sed -$(if $(filter Darwin,$(os)),E,r)
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| 4 |
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| 5 |
224
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aaronmk
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repl = ../scripts/util/repl
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sort = ../scripts/util/sort 1 0
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chRoot = ../scripts/util/ch_root <$< >$@
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| 8 |
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empty = $(SED) -n \
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| 9 |
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's/^CREATE TABLE ([0-9A-Za-z_]+) \($$/TRUNCATE \1 CASCADE;/p' <$< >$@
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| 11 |
223
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aaronmk
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misc = schemas/vegbien.sql schemas/vegbien_empty.sql VegX-VegBIEN.organisms.csv
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| 13 |
224
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aaronmk
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| 14 |
235
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aaronmk
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all: _not_file $(misc)
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| 15 |
197
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aaronmk
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$(MAKE) plots
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| 16 |
198
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aaronmk
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./join VegX VegBank
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./join VegX VegBIEN
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199
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aaronmk
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./review
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| 19 |
223
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aaronmk
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.PRECIOUS: $(misc)
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| 20 |
150
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aaronmk
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| 21 |
223
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aaronmk
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.SUFFIXES:
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| 22 |
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| 23 |
235
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aaronmk
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_not_file:
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.PHONY: _not_file
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| 25 |
188
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aaronmk
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| 26 |
199
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aaronmk
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all =\
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| 27 |
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$(wildcard for_review/*.csv) \
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| 28 |
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$(filter-out VegX-% VegBank-%,$(wildcard *-VegBank.*.csv)) \
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| 29 |
223
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aaronmk
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VegX-*.plots.csv $(misc)
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| 30 |
196
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aaronmk
|
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| 31 |
235
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aaronmk
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clean: _not_file
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| 32 |
196
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aaronmk
|
$(RM) $(all)
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| 33 |
188
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aaronmk
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| 34 |
198
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aaronmk
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| 35 |
212
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aaronmk
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schemas/vegbien.sql: schemas/vegbank.sql
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| 36 |
218
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aaronmk
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$(repl) <$< VegBank-VegBIEN.schema.csv|$(repl) VegBank-VegBIEN.csv >$@
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| 37 |
212
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aaronmk
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| 38 |
223
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aaronmk
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schemas/vegbien_empty.sql: schemas/vegbien.sql
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| 39 |
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$(empty)
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| 40 |
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| 41 |
212
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aaronmk
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VegX-VegBIEN.organisms.csv: VegX-VegBank.organisms.csv
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| 42 |
221
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aaronmk
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$(repl) <$< VegBank-VegBIEN.csv 1|$(sort) >$@
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| 43 |
212
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aaronmk
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| 44 |
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| 45 |
235
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aaronmk
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plots: _not_file $(subst .organisms.,.plots.,$(wildcard VegX-*.organisms.csv))
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| 46 |
197
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aaronmk
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| 47 |
188
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aaronmk
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chRoot2PlotsLeftVegx =\
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| 48 |
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env \
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| 49 |
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left_in_root='/*s/individualOrganismObservation/*ID->/*s/plotObservation' \
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| 50 |
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left_out_root='/*s/plotObservation' \
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| 51 |
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$(chRoot)
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| 52 |
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| 53 |
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VegX-VegBank.plots.csv: VegX-VegBank.organisms.csv
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| 54 |
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$(chRoot2PlotsVegxVegbank)
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| 55 |
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chRoot2PlotsVegxVegbank =\
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| 56 |
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env \
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| 57 |
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right_in_root='/taxonObservation/*_ID/observation' \
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| 58 |
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right_out_root='/observation' \
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| 59 |
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$(chRoot2PlotsLeftVegx)
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| 60 |
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| 61 |
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VegX-VegBIEN.plots.csv: VegX-VegBIEN.organisms.csv
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| 62 |
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$(chRoot2PlotsVegxVegbien)
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| 63 |
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chRoot2PlotsVegxVegbien =\
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| 64 |
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env \
|
| 65 |
200
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aaronmk
|
right_in_root='/taxonoccurrence/*_ID/plotevent' \
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| 66 |
188
|
aaronmk
|
right_out_root='/plotevent' \
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| 67 |
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$(chRoot2PlotsLeftVegx)
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