Project

General

Profile

1
root := .
2
include lib/common.Makefile
3

    
4

    
5
##### Vars/functions
6

    
7
# Make
8
SHELL := /bin/bash
9

    
10
# Paths
11
bin := bin
12

    
13
##### Environment
14

    
15
export PGOPTIONS = --client-min-messages=WARNING
16

    
17
##### General targets
18

    
19
remake: _always clean
20
	$(MAKE)
21
# re-run make so that cache of existing files is reset
22

    
23
##### Installation
24

    
25
# public must be installed *after* inputs because some views depend on inputs
26
install: _always config core mysql inputs/download inputs/install \
27
schemas/public/install test
28
	@$(done)
29

    
30
uninstall: _always rm_mysql rm_core ;
31

    
32
reinstall: _always uninstall install ;
33

    
34
##### config: live and test environments
35

    
36
config: _always
37
	mkdir -p ~/bin
38
	ln -s $(realpath bin/make) ~/bin
39

    
40
##### Core: VegBIEN DB and dependencies
41

    
42
core: _always $(call forOs,apache python php postgres misc) db
43
	@$(done)
44

    
45
rm_core: _always rm_db ;
46

    
47
reinstall_core: _always rm_core core ;
48

    
49
##### Apache
50

    
51
apache-Linux: _always
52
	# Apache 2.4
53
	-sudo apt-get --yes install python-software-properties
54
	-sudo apt-add-repository ppa:ptn107/apache
55
	-sudo apt-add-repository ppa:nathan-renniewaldock/apache2.4-php
56
	-sudo apt-get update
57
	-sudo apt-get --yes install apache2
58
	-sudo apt-get --yes purge libapache2-mod-php5
59
	-sudo apt-get --yes install libapache2-mod-php5
60

    
61
apache-Darwin: _always ;
62

    
63
##### Python
64

    
65
python-Linux: _always
66
	-sudo apt-get --yes install python
67
	-sudo apt-get --yes install python3
68
	-sudo apt-get --yes install python-dev
69
	-sudo apt-get --yes install python-dateutil
70
	-sudo apt-get --yes install python-parallel
71
	-sudo apt-get --yes install python-profiler
72
	-sudo apt-get --yes install python-pip
73
	-sudo apt-get --yes install pymetrics
74
	-sudo pip install ordereddict
75
	-sudo pip install pp
76

    
77
python-Darwin: _always
78
	@# Python 2 comes preinstalled
79
	@echo $(emph)'Installing Python 3.2 on Mac OS X:'$(endEmph)
80
	@echo 'Download it: http://www.python.org/ftp/python/3.2.3/python-3.2.3-macosx10.6.dmg'
81
	@echo 'Open the disk image'
82
	@echo 'Run the installer in it'
83
	@$(wait)
84
	@echo $(emph)'Installing python-dateutil on Mac OS X:'$(endEmph)
85
	@echo 'Download it for Python 2: http://labix.org/download/python-dateutil/python-dateutil-1.5.tar.gz'
86
	@echo 'Extract the archive'
87
	@echo 'Change to the directory of the extracted files'
88
	@echo 'Run python setup.py build'
89
	@echo 'Run sudo python setup.py install'
90
	@echo "Run python -c 'import dateutil'"
91
	@echo 'Download it for Python 3: http://labix.org/download/python-dateutil/python-dateutil-2.0.tar.gz'
92
	@echo 'Extract the archive'
93
	@echo 'Change to the directory of the extracted files'
94
	@echo 'Run python3 setup.py build'
95
	@echo 'Run sudo python3 setup.py install'
96
	@echo "Run python3 -c 'import dateutil'"
97
	@$(wait)
98
	@echo $(emph)'Installing pip on Mac OS X:'$(endEmph)
99
	@echo 'Follow the instructions at http://www.pip-installer.org/en/latest/installing.html'
100
	@$(wait)
101

    
102
##### PHP
103

    
104
php-Linux: _always
105
	-sudo apt-get --yes install php-http-request
106

    
107
php-Darwin: _always
108
	@echo $(emph)'Installing PHP PEAR and HTTP_Request on Mac OS X:'$(endEmph)
109
	@echo 'Download http://pear.php.net/go-pear.phar'
110
	@echo 'Change to the directory of the downloaded file'
111
	@echo 'Run php -d detect_unicode=0 go-pear.phar'
112
	@echo 'Whenever prompted, press Enter to select default options'
113
	@echo 'Add $$HOME/pear/bin to your $$PATH'
114
	@echo 'Add $(HOME)/pear/share/pear to your php.ini include_path'
115
	@echo 'If needed, set $$PHPRC to your php.ini'
116
	@echo "Run pear install HTTP_Request"
117
	@echo 'To run a php command: php -c <php.ini-path> ...'
118
	@$(wait)
119

    
120
##### PostgreSQL
121

    
122
define editPhppgadmin
123
-sudo patch /etc/phppgadmin/config.inc.php lib/phpPgAdmin.config.inc.php.diff
124
sudo cp -n /usr/share/phppgadmin/login.php /usr/share/phppgadmin/login.php.old
125
-sudo patch /usr/share/phppgadmin/login.php lib/phpPgAdmin.login.php.diff
126
endef
127
# ignore errors if patch has already been applied
128

    
129
editPhppgadminApacheConf = echo $$'1\n,s/deny from all/allow from all/\nwq'|\
130
sudo ed --loose-exit-status --verbose /etc/phppgadmin/apache.conf
131

    
132
apacheConf := /etc/apache2/apache2.conf
133
apacheConfPhppgadminLine := Include /etc/phppgadmin/apache.conf
134
editApacheConfForPhppgadmin =\
135
$(if $(shell grep -F "$(apacheConfPhppgadminLine)" $(apacheConf)),,\
136
$(call sudoAppend,$(apacheConf),\n$(apacheConfPhppgadminLine)))
137

    
138
nonApacheOnPort80 = $(shell sudo lsof -i :80|tail -n +2|grep -v -F apache2)
139
editApachePortsConf = echo $$'1\n,s/\\b80\\b/8080/g\nwq'|\
140
sudo ed --loose-exit-status --verbose /etc/apache2/ports.conf
141

    
142
asBien := sudo -E -u bien
143
pgVersion = "$$(env minor=1 bin/pg_version)"
144

    
145
linuxPostgresDir := /etc/postgresql/9.1/main
146
define pg_ctl-Linux
147
$(asAdmin) /etc/init.d/postgresql $(1)
148
endef
149

    
150
macPostgresDir := /Library/PostgreSQL/9.1
151
define macUsePostgresLib
152
sudo mv $(libDest) $(libDest).old||sudo rm -f $(libDest)
153
sudo ln -s $(macPostgresDir)/lib/$(1) $(libDest)
154

    
155
endef
156
libDest = /usr/lib/$(1)
157

    
158
macPostgresLibs := libcrypto libssl
159
macPostgresLibs := $(macPostgresLibs) $(macPostgresLibs:%=%.1.0.0)
160
macPostgresLibs := $(macPostgresLibs:%=%.dylib)
161

    
162
define pg_ctl-Darwin
163
$(asAdmin) pg_ctl -D $(macPostgresDir)/data -l $(macPostgresDir)/postgres.log $(1)
164
sleep 2
165
endef
166

    
167
confirmPostgresReload = $(call confirm,Modifying postgresql.conf and pg_hba.conf)
168

    
169
define postgresReload-Linux
170
@$(confirmPostgresReload)
171
@echo $(emph)'kernel.shmmax must be set to at least 4GB minus 1 byte:'$(endEmph)
172
@echo 'Append the following to /etc/sysctl.conf:'
173
@echo 'kernel.shmmax=4294967295'
174
@$(wait)
175
chmod a+r schemas/*.conf || $(asBien) chmod a+r schemas/*.conf
176
-$(asAdmin) mv -n $(linuxPostgresDir)/postgresql.conf $(linuxPostgresDir)/postgresql.conf.old
177
$(asAdmin) cp --preserve=timestamps schemas/postgresql.conf $(linuxPostgresDir)/postgresql.conf
178
-$(asAdmin) mv -n $(linuxPostgresDir)/pg_hba.conf $(linuxPostgresDir)/pg_hba.conf.old
179
$(asAdmin) cp --preserve=timestamps schemas/pg_hba.conf $(linuxPostgresDir)/pg_hba.conf
180
@echo $(emph)'restart PostgreSQL manually:'$(endEmph)
181
@echo $(call pg_ctl-Linux,restart)
182
@$(wait)
183

    
184
endef
185

    
186
define postgresReload-Darwin
187
@$(confirmPostgresReload)
188
chmod a+r schemas/*.conf
189
-$(asAdmin) mv -n $(macPostgresDir)/data/postgresql.conf $(macPostgresDir)/data/postgresql.conf.old
190
$(asAdmin) cp schemas/postgresql.Mac.conf $(macPostgresDir)/data/postgresql.conf
191
-$(asAdmin) mv -n $(macPostgresDir)/data/pg_hba.conf $(macPostgresDir)/data/pg_hba.conf.old
192
$(asAdmin) cp schemas/pg_hba.Mac.conf $(macPostgresDir)/data/pg_hba.conf
193
-$(asAdmin) mv -n $(macPostgresDir)/data/pg_ident.conf $(macPostgresDir)/data/pg_ident.conf.old
194
$(asAdmin) cp schemas/pg_ident.Mac.conf $(macPostgresDir)/data/pg_ident.conf
195
$(call pg_ctl-Darwin,restart)
196

    
197
endef
198

    
199
postgres_reload: _always
200
	$($(call forOs,postgresReload))
201

    
202
postgres-Linux: _always
203
	-sudo apt-get --yes install postgresql
204
	-sudo apt-get --yes install postgresql-contrib
205
	-sudo apt-get --yes install postgresql-plpython3-$(pgVersion)
206
	-sudo apt-get --yes install libpq-dev
207
	-sudo apt-get --yes install postgresql-$(pgVersion)-postgis
208
	-sudo apt-get --yes install phppgadmin
209
	$(editPhppgadmin)
210
	$(editPhppgadminApacheConf)
211
	-sudo ln -s ../conf.d/phppgadmin.conf /etc/apache2/conf-available/
212
	sudo a2enconf phppgadmin
213
	$(editApacheConfForPhppgadmin)
214
	$(if $(nonApacheOnPort80),$(editApachePortsConf))
215
	-sudo apache2ctl restart
216
	-sudo pip install psycopg2
217
	-$(MAKE) $(postgresReload-Linux)
218
# run pg_version inline because it needs postgresql to be installed first
219
# ignore errors if conf files already edited
220

    
221
postgres-Darwin: _always
222
	@echo $(emph)'Installing PostgreSQL on Mac OS X:'$(endEmph)
223
	@echo 'Download it using the topmost "Mac OS X" link at http://http://www.enterprisedb.com/products-services-training/pgdownload'
224
	@echo 'Open the disk image'
225
	@echo 'Run the installer in it'
226
	@$(wait)
227
	$(foreach lib,$(macPostgresLibs),$(call macUsePostgresLib,$(lib)))
228
	-$(MAKE) $(postgresReload-Darwin)
229

    
230
postgres-: _always ; # other OSes
231

    
232
psqlOpts := --set ON_ERROR_STOP=1 --quiet
233
psqlAsAdmin := $(asAdmin) psql $(psqlOpts)
234
    # -E preserves env vars so PGOPTIONS is passed to psql
235
psqlAsAdminVegbien := $(psqlAsAdmin) vegbien
236
bienPassword := $(shell cat config/bien_password)
237
bienReadPassword := $(shell cat config/bien_read_password)
238

    
239
##### Misc.
240

    
241
misc-Linux: _always
242
	cp -p "$(shell which dotlockfile)" bin/
243

    
244
misc-Darwin: _always ;
245

    
246
##### VegBIEN DB
247

    
248
#### DB and users
249

    
250
confirmRmDb = $(call confirm,WARNING: This will delete your entire VegBIEN\
251
DB!,This includes all archived imports and staging tables.)
252

    
253
confirmRmPublicSchema = $(call confirm,WARNING: This will delete the current\
254
public schema of your VegBIEN DB!,To save it: make schemas/rotate)
255

    
256
rmPublicSchema := $(call rmSchemaCmd,public)
257

    
258
db: mk_db rm_initial_public schemas/install _always ;
259

    
260
mk_db: _always
261
	-echo "CREATE USER public_;"|$(psqlAsAdmin)
262
	-echo "CREATE USER bien PASSWORD '$(bienPassword)';"|$(psqlAsAdmin)
263
	-echo "CREATE USER bien_read PASSWORD '$(bienReadPassword)' IN ROLE bien \
264
NOINHERIT;"|$(psqlAsAdmin)
265
	-echo "CREATE DATABASE vegbien WITH OWNER bien TEMPLATE template1 \
266
ENCODING 'UTF8' LC_COLLATE 'en_US.UTF-8' LC_CTYPE 'en_US.UTF-8';"|$(psqlAsAdmin)
267
	-echo "CREATE EXTENSION hstore SCHEMA pg_catalog;"|$(psqlAsAdminVegbien)
268
	-$(asAdmin) createlang plpython3u vegbien
269
	-cat config/users.sql|$(psqlAsAdmin)
270
# ignore errors if user/database/etc. exists
271

    
272
rm_initial_public: _always
273
	@$(confirmRmPublicSchema)
274
	echo $(rmPublicSchema)|$(psqlAsAdminVegbien)
275
# drop public schema *as admin* because it starts out owned by postgres
276

    
277
rm_db: _always
278
	@$(confirmRmDb)
279
	echo "DROP DATABASE IF EXISTS vegbien;"|$(psqlAsAdmin)
280
	echo "DROP USER IF EXISTS bien_read;"|$(psqlAsAdmin)
281
	echo "DROP USER IF EXISTS bien;"|$(psqlAsAdmin)
282
	echo "DROP USER IF EXISTS public_;"|$(psqlAsAdmin)
283

    
284
reinstall_db: _always rm_db db ;
285

    
286
##### MySQL
287

    
288
mysql: _always $(call forOs,mysql) mysql_users
289
	@$(done)
290

    
291
rm_mysql: _always rm_mysql_users ;
292

    
293
mysql-Linux: _always
294
	@echo $(emph)"If asked for MySQL root password, enter $(bienPassword)"$(endEmph)
295
	@$(wait)
296
	-sudo apt-get --yes install mysql-server
297
	-sudo apt-get --yes install mysql-client
298
	-sudo apt-get --yes install python-mysqldb
299
	-sudo apt-get --yes install phpmyadmin
300

    
301
mysql-Darwin: _always
302
	@echo $(emph)'Installing MySQLdb Python driver on Mac OS X 10.7 (may work on other versions):'$(endEmph)
303
	@echo 'Download it using "latest version" link at http://sourceforge.net/projects/mysql-python/files/'
304
	@echo 'Extract the archive'
305
	@echo '(From http://www.rustyrazorblade.com/2011/11/installing-mysqldb-on-macos-lion/:)'
306
	@echo 'Run ln -s /usr/local/mysql/lib/libmysqlclient.18.dylib /usr/lib/libmysqlclient.18.dylib'
307
	@echo 'Run ln -s /usr/local/mysql/lib /usr/local/mysql/lib/mysql'
308
	@echo '(From http://blog.infoentropy.com/MySQL-python_EnvironmentError_mysql_config_not_found:)'
309
	@echo 'Edit site.cfg and change the line like "mysql_config = " to "mysql_config = /usr/local/mysql/bin/mysql_config"'
310
	@echo '(From http://www.mangoorange.com/2008/08/01/installing-python-mysqldb-122-on-mac-os-x/:)'
311
	@echo 'Change to the directory of the extracted files'
312
	@echo 'Run python setup.py clean'
313
	@echo 'Run python setup.py build'
314
	@echo 'Run sudo python setup.py install'
315
	@echo "Run python -c 'import MySQLdb'"
316
	@$(wait)
317

    
318
mysql-: _always # other OSes
319

    
320
mysqlAsRoot := mysql --user=root --password='$(bienPassword)'
321

    
322
mysql_users: _always
323
	-echo "CREATE USER 'bien'@'localhost' IDENTIFIED BY '$(bienPassword)';"\
324
|$(mysqlAsRoot)
325
	-echo "CREATE USER 'bien_read'@'%' IDENTIFIED BY '$(bienReadPassword)';"\
326
|$(mysqlAsRoot)
327
# ignore errors if user exists
328

    
329
rm_mysql_users: _always
330
	-echo "DROP USER 'bien_read'@'localhost';"|$(mysqlAsRoot)
331
	-echo "DROP USER 'bien'@'%';"|$(mysqlAsRoot)
332
# ignore errors if user exists
333

    
334
##### Datasources
335

    
336
inputs: _always inputs/all ;
337

    
338
inputs/install: _always
339
	echo '. bin/reinstall_all; wait'|bash -s
340

    
341
import: _always import-msg inputs/import_scrub ;
342
import-msg: _always
343
	@echo $(emph)"To import all inputs at once:"$(endEmph) . bin/import_all
344
	@echo
345

    
346
scrub: _always inputs/.TNRS/tnrs/tnrs-remake ;
347

    
348
verify: _always inputs/verify
349
	@$(done)
350

    
351
test: _always inputs/test
352
	@$(done)
353

    
354
##### Testing
355

    
356
test-all: _always remake test missing_mappings
357
	@$(done)
358

    
359
##### Subdir forwarding
360

    
361
# Must come last so overridden targets are not forwarded
362

    
363
define subdirTargets
364
$(subdir): _always
365
	+$$(subMake)
366

    
367
$(subdir)%: _always
368
	+$$(subMake)
369
.PRECIOUS: $(subdir)% # let subdir's Makefile decide whether to delete on error
370

    
371
$(subdir)reinstall: _always $(subdir)uninstall $(subdir)install ;
372
endef
373
$(foreach subdir,$(wildcard */),$(eval $(subdirTargets)))
374

    
375
Makefile: ;
376

    
377
%: $(addsuffix %,$(dir $(shell echo */Makefile))) _always ;
378

    
379
#### Maps validation
380

    
381
termsSubdirs := $(call no/,$(call wildcard/,inputs/*/))
382

    
383
include lib/mappings.Makefile
(4-4/10)