-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathRosalind.cabal
357 lines (340 loc) · 10.3 KB
/
Rosalind.cabal
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
cabal-version: 3.0
name: Rosalind
version: 0.1.0.0
synopsis:
extra-source-files:
README.md
common base
build-depends: base >=4.14 && <5
common deps
ghc-options: -Wall
-- -Werror
-fno-warn-incomplete-uni-patterns
-Wincomplete-patterns
-Wincomplete-uni-patterns
-Wincomplete-record-updates
-Wmissing-fields
-Wunused-top-binds
-Wunused-local-binds
-Wunused-pattern-binds
-- -Wunused-matches
-Wunused-do-bind
-- -Wunused-type-patterns
-Wunused-foralls
-Wunused-record-wildcards
-Wredundant-record-wildcards
-- -Wunused-packages
library Rosalind-lib
import: base
import: deps
exposed-modules:
Rosalind.CLI.RouteCommands
Rosalind.CLI.ProblemRunnerParser
Rosalind.CLI.ProblemRunner
Rosalind.CLI.SolverRunner
Rosalind.Problems.Rna
Rosalind.Problems.Hamm
Rosalind.Problems.Revc
Rosalind.Problems.Tran
Rosalind.Problems.Gc
Rosalind.Problems.Prot
Rosalind.Problems.Orf
Rosalind.Problems.Subs
Rosalind.Problems.Frmt
Rosalind.Problems.FrmtApp
Rosalind.Problems.FiltDataset
Rosalind.Problems.Filt
Rosalind.Problems.Lexf
Rosalind.Problems.Cons
Rosalind.Common
Rosalind.Codon2ProteinConv
Rosalind.DnaBase
Rosalind.RnaBase
Rosalind.Fasta
Rosalind.Fastq
Rosalind.GeneticStringConversion
Rosalind.Motif
Rosalind.ProteinWithStop
Rosalind.RosalindStrings
Rosalind.Services.Entrez
Rosalind.Services.DataAccess
Rosalind.Freer.FileSystem
Rosalind.Freer.ConsoleOut
Rosalind.Freer.EnvArgs
Rosalind.Freer.App
build-depends: containers
, lens
, mtl
, text
, protolude
, transformers
, aeson
, lens-aeson
, raw-strings-qq
, generic-lens
, generic-lens-core
, bytestring
, directory
, random
, wai
, hspec
, QuickCheck
, parsec
, parsec-numbers
, conduit
, streaming
, text-show
, exceptions
, req
, either
, split
, ilist
, regex-posix
, array
, async
, errors
, parsec-numbers
, parsec-numeric
, megaparsec
, vector
, template-haskell
, generic-monoid
, servant-openapi3
, openapi3
, servant
, extra
, freer-simple
, optparse-applicative
, filepath
hs-source-dirs: src/
default-language: Haskell2010
test-suite Rosalind-test
import: base
-- import: deps
default-language: Haskell2010
type: exitcode-stdio-1.0
hs-source-dirs: test/
main-is: Driver.hs
build-tool-depends:
tasty-discover:tasty-discover
other-modules:
Spec.Rosalind.Common
Spec.Rosalind.Problems.HedgehogProperties.Gen
Spec.Rosalind.Problems.HedgehogProperties.RnaProperties
Spec.Rosalind.CLI.RnaHedgehogSpec
Spec.Rosalind.Problems.RevcSpec
Spec.Rosalind.Problems.RevcHedgehogSpec
Spec.Rosalind.Problems.HammSpec
Spec.Rosalind.Problems.HammHedgehogSpec
Spec.Rosalind.Problems.RnaHedgehogSpec
Spec.Rosalind.Problems.TranHedgehogSpec
Spec.Rosalind.Problems.GcHedgehogSpec
Spec.Rosalind.Problems.ProtHedgehogSpec
Spec.Rosalind.Problems.OrfHedgehogSpec
Spec.Rosalind.Problems.SubsHedgehogSpec
Spec.Rosalind.FastaHedgehogSpec
Spec.Rosalind.FastqHedgehogSpec
Spec.Rosalind.MotifHedgehogSpec
Spec.Rosalind.Problems.FiltHedgehogSpec
Spec.Rosalind.Problems.LexfHedgehogSpec
Spec.Rosalind.Problems.ConsHedgehogSpec
build-depends:
Rosalind-lib
, tasty
, tasty-expected-failure
, hedgehog
, tasty-hedgehog
, tasty-quickcheck
, hspec
, containers
, tasty-hunit
, smallcheck
, lens
, lens-aeson
, containers
, parsec
, split
, QuickCheck
, aeson
, tasty-th
, HUnit
, text
, unordered-containers
, megaparsec
, directory
, filepath
, either
, mtl
, extra
, optparse-applicative
, freer-simple
ghc-options:
-- -Wall
-fno-warn-incomplete-uni-patterns
-Wincomplete-patterns
-fshow-warning-groups
-- -Werror
-- -Werror=incomplete-patterns
-Wincomplete-uni-patterns
-Wincomplete-record-updates
-Wmissing-fields
executable rosalind-cli
import: base
-- import: deps
main-is: CLI.hs
ghc-options: -main-is CLI
other-modules:
Rosalind.CLI.Server
Rosalind.CLI.CliProgram
hs-source-dirs: app/
build-depends:
Rosalind-lib
, optparse-applicative
, text
, timeit
, directory
, filepath
, warp
, rosalind-server
, extra
, freer-simple
, mtl
, wai-logger
default-language: Haskell2010
ghc-options:
-Wall
-fno-warn-incomplete-uni-patterns
-Wincomplete-patterns
-Wincomplete-uni-patterns
-Wincomplete-record-updates
-Wmissing-fields
-Wall
---Werror
-Wcompat
-Widentities -Wincomplete-uni-patterns
-Wincomplete-record-updates
-Wno-unused-top-binds
-Wno-orphans
library rosalind-server
import: base
import: deps
other-modules:
exposed-modules:
Rosalind.Server.Api
Rosalind.Server.App
hs-source-dirs:
server/src
build-depends:
aeson
, containers
, servant
, servant-server
, Rosalind-lib
, text
, wai
, warp
, servant-openapi3
, openapi3
, wai-logger
, extra
, freer-simple
default-language: Haskell2010
ghc-options: -Wall
-fno-warn-incomplete-uni-patterns
-Wincomplete-patterns
-Wincomplete-uni-patterns
-Wincomplete-record-updates
-Wmissing-fields
test-suite rosalind-server-test
import: base
import: deps
default-language: Haskell2010
type: exitcode-stdio-1.0
hs-source-dirs: server/test
main-is: Driver.hs
build-tool-depends:
tasty-discover:tasty-discover
other-modules:
Spec.ApiSpec
build-depends:
Rosalind-lib
, rosalind-server
, tasty
, tasty-expected-failure
, hedgehog
, tasty-hedgehog
, tasty-quickcheck
, hspec
, containers
, tasty-hunit
, tasty-hspec
, smallcheck
, tasty-th
, HUnit
, QuickCheck
, lens
, lens-aeson
, containers
, parsec
, split
, aeson
, text
, unordered-containers
, megaparsec
, directory
, filepath
, either
, servant-client
, servant-server
, servant
, wai
, warp
, http-client
, extra
ghc-options: -Wall
-fno-warn-incomplete-uni-patterns
-Wincomplete-patterns
-Wincomplete-uni-patterns
-Wincomplete-record-updates
-Wmissing-fields
executable rosalind-generator
import: base
import: deps
main-is: Main.hs
ghc-options: -main-is Main
other-modules:
Rosalind.GeneratorCLI.GeneratorCLI
Rosalind.GeneratorCLI.GeneratorParser
Rosalind.GeneratorCLI.PurescriptGenerator
hs-source-dirs: generators/
ghc-options:
build-depends:
Rosalind-lib
, optparse-applicative
, text
, timeit
, directory
, filepath
, warp
, rosalind-server
, extra
, lens -any
, purescript-bridge
, servant -any
, servant-purescript
, servant-server -any
, text -any
, aeson
, servant-foreign
, containers
default-language: Haskell2010
ghc-options: -Wall
-fno-warn-incomplete-uni-patterns
-Wincomplete-patterns
-Wincomplete-uni-patterns
-Wincomplete-record-updates
-Wmissing-fields
-Wall -Werror -Wcompat
-Widentities -Wincomplete-uni-patterns
-Wincomplete-record-updates
-Wno-unused-top-binds -Wno-orphans