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235
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aaronmk
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os = $(shell uname)
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| 2 |
224
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aaronmk
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| 3 |
235
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aaronmk
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SED = sed -$(if $(filter Darwin,$(os)),E,r)
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| 4 |
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| 5 |
240
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aaronmk
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#####
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| 6 |
224
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aaronmk
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| 7 |
240
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aaronmk
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all: _not_file misc
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| 8 |
197
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aaronmk
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$(MAKE) plots
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| 9 |
198
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aaronmk
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./join VegX VegBank
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| 10 |
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./join VegX VegBIEN
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| 11 |
199
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aaronmk
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./review
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| 12 |
150
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aaronmk
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| 13 |
223
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aaronmk
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.SUFFIXES:
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| 14 |
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| 15 |
235
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aaronmk
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_not_file:
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| 16 |
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.PHONY: _not_file
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| 17 |
188
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aaronmk
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| 18 |
240
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aaronmk
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misc = schemas/vegbien.sql schemas/vegbien_empty.sql VegX-VegBIEN.organisms.csv
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| 19 |
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| 20 |
199
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aaronmk
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all =\
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| 21 |
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$(wildcard for_review/*.csv) \
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| 22 |
357
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aaronmk
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$(filter-out VegX-% VegBank-%,$(wildcard *-VegBank.*.csv *-VegBIEN.*.csv)) \
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| 23 |
223
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aaronmk
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VegX-*.plots.csv $(misc)
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| 24 |
196
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aaronmk
|
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| 25 |
235
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aaronmk
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clean: _not_file
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| 26 |
196
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aaronmk
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$(RM) $(all)
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| 27 |
188
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aaronmk
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|
| 28 |
240
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aaronmk
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#####
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| 29 |
198
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aaronmk
|
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| 30 |
240
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aaronmk
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misc: $(misc)
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| 31 |
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.PRECIOUS: $(misc)
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| 32 |
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| 33 |
350
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aaronmk
|
bin = ../bin
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| 34 |
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repl = $(bin)/repl
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| 35 |
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sort = $(bin)/sort 1 0
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| 36 |
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chRoot = $(bin)/ch_root <$< >$@
|
| 37 |
240
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aaronmk
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empty = $(SED) -n \
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| 38 |
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's/^CREATE TABLE ([0-9A-Za-z_]+) \($$/TRUNCATE \1 CASCADE;/p' <$< >$@
|
| 39 |
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| 40 |
356
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aaronmk
|
VegBank-VegBIEN.%.csv: VegBank-VegBIEN.csv VegBank-VegBIEN.%_only.csv
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| 41 |
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$(bin)/cat_csv <$+ >$@
|
| 42 |
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.PRECIOUS: VegBank-VegBIEN.%.csv
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| 43 |
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|
| 44 |
359
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aaronmk
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schemas/vegbien.sql: schemas/vegbank.sql VegBank-VegBIEN.schema.csv
|
| 45 |
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$(repl) <$+ >$@
|
| 46 |
212
|
aaronmk
|
|
| 47 |
223
|
aaronmk
|
schemas/vegbien_empty.sql: schemas/vegbien.sql
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| 48 |
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$(empty)
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| 49 |
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|
| 50 |
350
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aaronmk
|
VegX-VegBank.organisms.csv: _not_file
|
| 51 |
359
|
aaronmk
|
$(bin)/in_place $@ $(sort)
|
| 52 |
350
|
aaronmk
|
|
| 53 |
359
|
aaronmk
|
VegX-VegBIEN.organisms.csv: VegX-VegBank.organisms.csv VegBank-VegBIEN.map.csv
|
| 54 |
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$(repl) <$+ 1|$(sort) >$@
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| 55 |
212
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aaronmk
|
|
| 56 |
240
|
aaronmk
|
#####
|
| 57 |
212
|
aaronmk
|
|
| 58 |
235
|
aaronmk
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plots: _not_file $(subst .organisms.,.plots.,$(wildcard VegX-*.organisms.csv))
|
| 59 |
197
|
aaronmk
|
|
| 60 |
188
|
aaronmk
|
chRoot2PlotsLeftVegx =\
|
| 61 |
|
|
env \
|
| 62 |
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left_in_root='/*s/individualOrganismObservation/*ID->/*s/plotObservation' \
|
| 63 |
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left_out_root='/*s/plotObservation' \
|
| 64 |
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|
$(chRoot)
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| 65 |
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| 66 |
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VegX-VegBank.plots.csv: VegX-VegBank.organisms.csv
|
| 67 |
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$(chRoot2PlotsVegxVegbank)
|
| 68 |
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chRoot2PlotsVegxVegbank =\
|
| 69 |
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env \
|
| 70 |
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right_in_root='/taxonObservation/*_ID/observation' \
|
| 71 |
|
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right_out_root='/observation' \
|
| 72 |
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$(chRoot2PlotsLeftVegx)
|
| 73 |
|
|
|
| 74 |
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|
VegX-VegBIEN.plots.csv: VegX-VegBIEN.organisms.csv
|
| 75 |
|
|
$(chRoot2PlotsVegxVegbien)
|
| 76 |
|
|
chRoot2PlotsVegxVegbien =\
|
| 77 |
|
|
env \
|
| 78 |
200
|
aaronmk
|
right_in_root='/taxonoccurrence/*_ID/plotevent' \
|
| 79 |
188
|
aaronmk
|
right_out_root='/plotevent' \
|
| 80 |
|
|
$(chRoot2PlotsLeftVegx)
|
