README.md

   1 # Gargantext with Haskell (Backend instance)
   2
   3 ## About the project
   4
   5 GarganText is a collaborative web-decentralized-based macro-service
   6 platform for the exploration of unstructured texts. It combines tools
   7 from natural language processing, text-data-mining tricks, complex
   8 networks analysis algorithms and interactive data visualization tools to
   9 pave the way toward new kinds of interactions with your digital corpora.
  10
  11 This software is free software, developed and offered by the CNRS
  12 Complex Systems Institute of Paris Île-de-France (ISC-PIF) and its
  13 partners.
  14
  15 GarganText Project: this repo builds the
  16 backend for the frontend server built by
  17 [backend](https://gitlab.iscpif.fr/gargantext/haskell-gargantext).
  18
  19
  20 ## Installation
  21
  22 Disclaimer: this project is still in development, this is work in
  23 progress. Please report and improve this documentation if you encounter issues.
  24
  25 ### Stack setup
  26
  27 You need to install stack first:
  28
  29 ```shell
  30 curl -sSL https://get.haskellstack.org/ | sh
  31 ```
  32
  33 Verify the installation is complete with
  34 ```shell
  35 stack --version
  36 ```
  37
  38 ### With Nix setup
  39
  40 First install [nix](https://nixos.org/guides/install-nix.html):
  41
  42 ```shell
  43 curl -sSL https://nixos.org/nix/install | sh
  44 ```
  45
  46 Verify the installation is complete
  47 ```shell
  48 $ nix-env
  49 nix-env (Nix) 2.3.12
  50 ```
  51 And just build:
  52 ``` sh
  53 stack --nix build --fast
  54 ```
  55
  56 ### Build Core Code
  57
  58 NOTE: Default build (with optimizations) requires large amounts of RAM
  59 (16GB at least). To avoid heavy compilation times and swapping out your
  60 machine, it is recommended to `stack build` with the `--fast-` flag,
  61 i.e.:
  62
  63 ``` sh
  64 stack --nix build --fast
  65 ```
  66 or
  67
  68 ``` sh
  69 stack --docker build --fast
  70 ```
  71
  72 #### Docker
  73
  74 ``` sh
  75 curl -sSL https://gitlab.iscpif.fr/gargantext/haskell-gargantext/raw/dev/devops/docker/docker-install | sh
  76 ```
  77
  78 #### Debian
  79
  80 ``` sh
  81 curl -sSL https://gitlab.iscpif.fr/gargantext/haskell-gargantext/raw/dev/devops/debian/install | sh
  82 ```
  83
  84 #### Ubuntu
  85
  86 ``` sh
  87 curl -sSL https://gitlab.iscpif.fr/gargantext/haskell-gargantext/raw/dev/devops/ubuntu/install | sh
  88 ```
  89
  90 ### Add dependencies
  91
  92 1. CoreNLP is needed (EN and FR); This dependency will not be needed soon.
  93
  94 ``` sh
  95 ./devops/install-corenlp
  96 ```
  97
  98
  99 ### Initialization
 100
 101 #### Docker
 102
 103 Run PostgreSQL first:
 104
 105 ``` sh
 106 cd devops/docker
 107 docker-compose up
 108 ```
 109
 110 Initialization schema should be loaded automatically (from `devops/postgres/schema.sql`).
 111
 112 #### Gargantext
 113
 114 ##### Fix the passwords
 115
 116 Change the passwords in gargantext.ini_toModify then move it:
 117
 118 ``` sh
 119 mv gargantext.ini_toModify gargantext.ini
 120 ```
 121 (`.gitignore` avoids adding this file to the repository by mistake)
 122
 123
 124 ##### Run Gargantext
 125
 126 Users have to be created first (`user1` is created as instance):
 127
 128 ``` sh
 129 stack install
 130 ~/.local/bin/gargantext-init "gargantext.ini"
 131 ```
 132
 133 For Docker env, first create the appropriate image:
 134
 135 ``` sh
 136 cd devops/docker
 137 docker build -t cgenie/stack-build:lts-18.12-garg .
 138 ```
 139
 140 then run:
 141
 142 ``` sh
 143 stack --docker exec gargantext-init -- gargantext.ini
 144 ```
 145
 146 ### Importing data
 147
 148 You can import some data with:
 149 ``` sh
 150 docker run --rm -it -p 9000:9000 cgenie/corenlp-garg
 151 stack exec gargantext-import -- "corpusCsvHal" "user1" "IMT3" gargantext.ini 10000 ./1000.csv
 152 ```
 153
 154 ### Nix
 155
 156 It is also possible to build everything with [Nix](https://nixos.org/) instead of Docker:
 157 ``` sh
 158 stack --nix build
 159 stack --nix exec gargantext-import -- "corpusCsvHal" "user1" "IMT3" gargantext.ini 10000 ./1000.csv
 160 stack --nix exec gargantext-server -- --ini gargantext.ini --run Prod
 161 ```
 162
 163 ## Use Cases
 164
 165 ### Multi-User with Graphical User Interface (Server Mode)
 166
 167 ``` sh
 168 ~/.local/bin/stack --docker exec gargantext-server -- --ini "gargantext.ini" --run Prod
 169 ```
 170
 171 Then you can log in with `user1` / `1resu`.
 172
 173
 174 ### Command Line Mode tools
 175
 176 #### Simple cooccurrences computation and indexation from a list of Ngrams
 177
 178 ``` sh
 179 stack --docker exec gargantext-cli -- CorpusFromGarg.csv ListFromGarg.csv Ouput.json
 180 ```
 181
 182 ### Analyzing the ngrams table repo
 183
 184 We store the repository in directory `repos` in the [CBOR](https://cbor.io/)
 185 file format. To decode it to JSON and analyze, say, using
 186 [jq](https://shapeshed.com/jq-json/), use the following command:
 187
 188 ``` sh
 189 cat repos/repo.cbor.v5 | stack --nix exec gargantext-cbor2json | jq .
 190 ```
 191 ### Documentation
 192
 193 To build documentation, run:
 194
 195 ```sh
 196 stack --docker build --haddock --no-haddock-deps --fast
 197 ```
 198
 199 (in `.stack-work/dist/x86_64-linux-nix/Cabal-3.2.1.0/doc/html/gargantext`).
 200
 201 ## GraphQL
 202
 203 Some introspection information.
 204
 205 Playground is located at http://localhost:8008/gql
 206
 207 ### List all GraphQL types in the Playground
 208
 209 ```
 210 {
 211   __schema {
 212     types {
 213       name
 214     }
 215   }
 216 }
 217 ```
 218
 219 ### List details about a type in GraphQL
 220
 221 ```
 222 {
 223   __type(name:"User") {
 224         fields {
 225         name
 226       description
 227       type {
 228         name
 229       }
 230         }
 231         }
 232 }
 233 ```
 234 ## PostgreSQL
 235
 236 ### Upgrading using Docker
 237
 238 https://www.cloudytuts.com/tutorials/docker/how-to-upgrade-postgresql-in-docker-and-kubernetes/
 239
 240 To upgrade PostgreSQL in Docker containers, for example from 11.x to 14.x, simply run:
 241 ```sh
 242 docker exec -it <container-id> pg_dumpall -U gargantua > 11-db.dump
 243 ```
 244
 245 Then, shut down the container, replace `image` section in
 246 `devops/docker/docker-compose.yaml` with `postgres:14`. Also, it is a good practice to create a new volume, say `garg-pgdata14` and bind the new container to it. If you want to keep the same volume, remember about removing it like so:
 247 ```sh
 248 docker-compose rm postgres
 249 docker volume rm docker_garg-pgdata
 250 ```
 251
 252 Now, start the container and execute:
 253 ```sh
 254 # need to drop the empty DB first, since schema will be created when restoring the dump
 255 docker exec -i <new-container-id> dropdb -U gargantua gargandbV5
 256 # recreate the db, but empty with no schema
 257 docker exec -i <new-container-id> createdb -U gargantua gargandbV5
 258 # now we can restore the dump
 259 docker exec -i <new-container-id> psql -U gargantua -d gargandbV5 < 11-db.dump
 260 ```
 261
 262 ### Upgrading using
 263
 264 There is a solution using pgupgrade_cluster but you need to manage the
 265 clusters version 14 and 13. Hence here is a simple solution to upgrade.
 266
 267 First save your data:
 268 ```
 269 sudo su postgres
 270 pg_dumpall > gargandb.dump
 271 ```
 272
 273 Upgrade postgresql:
 274 ```
 275 sudo apt install postgresql-server-14 postgresql-client-14
 276 sudo apt remove --purge postgresql-13
 277 ```
 278 Restore your data:
 279 ```
 280 sudo su postgres
 281 psql < gargandb.dump
 282 ```
 283
 284 Maybe you need to restore the gargantua password
 285 ```
 286 ALTER ROLE gargantua PASSWORD 'yourPasswordIn_gargantext.ini'
 287 ```
 288 Maybe you need to change the port to 5433 for database connection in
 289 your gargantext.ini file.
 290
 291
 292
 293