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1
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selfDir_3d1bc249 := $(dir $(lastword $(MAKEFILE_LIST)))
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2
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3
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# Make
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4
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subMake = $(MAKE) $(@F) --directory=$(@D)
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5
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+_ = $(+:_%=)
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6
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addBeforeExt = $(basename $(2))$(1)$(suffix $(2))
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7
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8
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# Commands
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9
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CP = cp -p
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10
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DIFF = diff --unified=2
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11
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12
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tablesSort := plots organisms stems
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13
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vegxMaps := $(wildcard $(tablesSort:%=maps/VegX.%.csv))
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14
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vegxMaps += $(filter-out $(vegxMaps),$(wildcard maps/VegX.*.csv))
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15
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tables := $(vegxMaps:maps/VegX.%.csv=%)
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16
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vegbienMaps := $(subst VegX.,VegBIEN.,$(vegxMaps))
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17
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18
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root := $(selfDir_3d1bc249)..
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19
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psqlAsBien := $(root)/bin/psql_vegbien
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20
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21
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# Config
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22
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test_n ?= 2
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23
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24
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#####
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25
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26
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all: _always maps ;
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27
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28
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.SUFFIXES:
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29
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30
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_always:
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31
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.PHONY: _always
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32
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33
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clean: _always
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34
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$(RM) $(all)
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35
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36
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remake: _always clean all ;
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37
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38
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%.out: %.make _always
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39
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./$* >$@
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40
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.PRECIOUS: %.out
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41
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42
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$(root)/%: _always
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43
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+$(subMake)
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44
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45
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#####
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|
46
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47
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reinstall: _always uninstall install ;
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48
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49
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#####
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|
50
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51
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maps: $(vegbienMaps) _always ;
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52
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53
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all += $(vegbienMaps)
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54
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55
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maps/VegBIEN.%.csv: maps/VegX.%.csv $(root)/mappings/VegX-VegBIEN.%.csv
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56
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$(root)/bin/join_sort <$+ >$@
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57
|
.PRECIOUS: maps/VegBIEN.%.csv
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|
58
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59
|
#####
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|
60
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|
61
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import: _always $(addprefix import-,$(tables)) verify ;
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|
62
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63
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log = $*$(if $(n),.n=$(n),).log
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|
64
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|
|
65
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import-%: maps/VegBIEN.%.csv _always
|
|
66
|
-$(import_cmd)
|
|
67
|
import_cmd = (set -x; "time" env commit=1 $(map) $<) \
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|
68
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$(if $(n),,>>$(log)) 2>&1$(if $(n),|tee -a $(log))
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|
69
|
|
|
70
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logs := $(wildcard *.log)
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|
71
|
|
|
72
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rm_logs: _always
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|
73
|
$(RM) $(logs)
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|
74
|
|
|
75
|
#####
|
|
76
|
|
|
77
|
ifneq ($(wildcard verify.ref*),)
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78
|
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|
79
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verify: verify.ref verify.out _always
|
|
80
|
$(DIFF) $(+_)
|
|
81
|
|
|
82
|
all += verify.out
|
|
83
|
|
|
84
|
%.out: %.sql _always
|
|
85
|
$(out_cmd)
|
|
86
|
.PRECIOUS: %.out
|
|
87
|
out_cmd = $(psqlAsBien) --no-align --field-separator=' ' --pset=footer=off \
|
|
88
|
--pset=null=NULL <$< >$@
|
|
89
|
|
|
90
|
else
|
|
91
|
verify: _always ;
|
|
92
|
endif
|
|
93
|
|
|
94
|
#####
|
|
95
|
|
|
96
|
ifneq ($(wildcard test/),)
|
|
97
|
|
|
98
|
test: test/import.out _always
|
|
99
|
$(DIFF) $(<:.out=.ref) $<
|
|
100
|
|
|
101
|
all += test/import.out
|
|
102
|
|
|
103
|
accept: _always
|
|
104
|
$(CP) test/import.out test/import.ref
|
|
105
|
|
|
106
|
else
|
|
107
|
test: _always ;
|
|
108
|
endif
|
|
109
|
|
|
110
|
#####
|
|
111
|
|
|
112
|
# Each input type needs var $(mapEnv) and targets install, uninstall
|
|
113
|
|
|
114
|
dbFile := $(firstword $(wildcard src/*.sql))
|
|
115
|
|
|
116
|
ifneq ($(dbFile),)
|
|
117
|
|
|
118
|
dbFileBasename := $(basename $(notdir $(dbFile)))
|
|
119
|
dbEngineExt := $(subst .,,$(suffix $(dbFileBasename)))
|
|
120
|
db := $(basename $(dbFileBasename))
|
|
121
|
|
|
122
|
%.ref: %.ref.sql
|
|
123
|
$(inputDbAsBien) $(db) <$< >$@
|
|
124
|
.PRECIOUS: %.ref
|
|
125
|
|
|
126
|
####
|
|
127
|
|
|
128
|
install: _always db ;
|
|
129
|
|
|
130
|
uninstall: _always rm_db ;
|
|
131
|
|
|
132
|
####
|
|
133
|
|
|
134
|
test/import.out: $(vegbienMaps) _always
|
|
135
|
env test=1 n=$(test_n) $(map) $(+_) >$@ 2>&1 || { e=$$?; cat $@; exit $$e;}
|
|
136
|
.PRECIOUS: test/import.out
|
|
137
|
|
|
138
|
####
|
|
139
|
|
|
140
|
# Each DB engine needs vars $(dbEngine), $(dbAsBien) and targets db, rm_db
|
|
141
|
|
|
142
|
ifeq ($(dbEngineExt),my)
|
|
143
|
|
|
144
|
dbEngine := MySQL
|
|
145
|
|
|
146
|
bienPassword := $(shell cat $(root)/config/bien_password)
|
|
147
|
mysqlAs = mysql --user=$(1) --password='$(bienPassword)'
|
|
148
|
mysqlAsRoot := $(call mysqlAs,root)
|
|
149
|
dbAsBien := $(call mysqlAs,bien)
|
|
150
|
|
|
151
|
db: $(dbFile) _always
|
|
152
|
-$(mysqlAsRoot) <$<
|
|
153
|
echo "GRANT SELECT ON $(db).* TO 'bien'@'localhost';"|$(mysqlAsRoot)
|
|
154
|
# ignore errors in db import so that GRANT will still be run
|
|
155
|
|
|
156
|
rm_db: _always
|
|
157
|
-echo "REVOKE ALL ON $(db).* FROM 'bien'@'localhost';"|$(mysqlAsRoot)
|
|
158
|
echo "DROP DATABASE IF EXISTS $(db);"|$(mysqlAsRoot)
|
|
159
|
# ignore errors if grant not defined
|
|
160
|
|
|
161
|
###
|
|
162
|
|
|
163
|
else
|
|
164
|
$(error The DB filename $(dbFile) must have the form <db_name>.{my|pg}.sql)
|
|
165
|
endif
|
|
166
|
|
|
167
|
# Must come after dbEngine is set
|
|
168
|
mapEnv := in_engine=$(dbEngine) in_database=$(db)
|
|
169
|
|
|
170
|
####
|
|
171
|
|
|
172
|
else
|
|
173
|
mapEnv :=
|
|
174
|
install: _always ;
|
|
175
|
uninstall: _always ;
|
|
176
|
endif
|
|
177
|
|
|
178
|
#####
|
|
179
|
|
|
180
|
# Must come after mapEnv is set
|
|
181
|
map := env $(mapEnv) out_database=vegbien $(root)/map
|
