default.nix 12.4 KB
Newer Older
Valentin Reis's avatar
Valentin Reis committed
1
{ # host package set (unused except for fetching nixpkgs)
Valentin Reis's avatar
Valentin Reis committed
2
  hostPkgs         ? import <nixpkgs> {}
Valentin Reis's avatar
Valentin Reis committed
3
4

, # versioned nixpkgs
Valentin Reis's avatar
Valentin Reis committed
5
  pkgs             ? import (hostPkgs.nix-update-source.fetch ./pkgs.json).src {}
Valentin Reis's avatar
Valentin Reis committed
6

Valentin Reis's avatar
Valentin Reis committed
7
, # versioned nixpkgs-older version for zmcat
Valentin Reis's avatar
Valentin Reis committed
8
  pkgs-old         ? import (hostPkgs.nix-update-source.fetch ./pkgs-old.json).src {}
Valentin Reis's avatar
Valentin Reis committed
9

Valentin Reis's avatar
Valentin Reis committed
10
, # fetcher alias for the remaining arguments
Valentin Reis's avatar
Valentin Reis committed
11
  fetched          ? s: (pkgs.nix-update-source.fetch s).src
Valentin Reis's avatar
Valentin Reis committed
12
13

, #source overrides: core nrm components
Valentin Reis's avatar
Valentin Reis committed
14
  aml-src          ? fetched aml/pin.json
Valentin Reis's avatar
Valentin Reis committed
15
, numabench-src    ? fetched numabench/pin.json
Valentin Reis's avatar
Valentin Reis committed
16
, excit-src        ? fetched excit/pin.json
Valentin Reis's avatar
Valentin Reis committed
17
18
19
, libnrm-src       ? fetched libnrm/pin.json
, nrm-src          ? fetched nrm/pin.json
, containers-src   ? fetched containers/pin.json
Valentin Reis's avatar
Valentin Reis committed
20
21

, #source overrides: applications
Valentin Reis's avatar
Valentin Reis committed
22
23
24
25
26
  amg-src          ? fetched amg/pin.json
, qmcpack-src      ? fetched qmcpack/pin.json
, openmc-src       ? fetched openmc/pin.json
, stream-src       ? fetched stream/pin.json
, lammps-src       ? fetched lammps/pin.json
Valentin Reis's avatar
Valentin Reis committed
27

Valentin Reis's avatar
Valentin Reis committed
28
, #source overrides: tooling
29
30
  argotk-src       ? builtins.fetchGit {inherit (fetched argotk/pin.json) url rev;}
, repoquality-src  ? builtins.fetchGit {inherit (fetched repoquality/pin.json) url rev;}
Valentin Reis's avatar
Valentin Reis committed
31
, powerplots-src   ? builtins.fetchGit {inherit (fetched powerplots/pin.json) url rev;}
32
, argonix-src      ? builtins.fetchGit {inherit (fetched argonix/pin.json) url rev;}
Valentin Reis's avatar
Valentin Reis committed
33
, experiments-src  ? fetched experiments/pin.json
34
35

, #used for hardware experiments.
Valentin Reis's avatar
Valentin Reis committed
36
  sudoPath         ? null
Valentin Reis's avatar
Valentin Reis committed
37

Valentin Reis's avatar
Valentin Reis committed
38
39
, #whether to graft apps on libnrm.
  graftLibnrm      ? false
Valentin Reis's avatar
.  
Valentin Reis committed
40
41
}:
let
Valentin Reis's avatar
Valentin Reis committed
42
  callPackage = pkgs.lib.callPackageWith (pkgs // argopkgs);
43

Valentin Reis's avatar
Valentin Reis committed
44
  argopkgs = rec {
45
    # library of nix expressions
Valentin Reis's avatar
style.    
Valentin Reis committed
46
    argolib       = import ../lib/utils.nix;
47
    # Argo components (source overridabel via argument)
Valentin Reis's avatar
Valentin Reis committed
48
    aml           = callPackage ./aml        {src=aml-src; inherit excit; inherit numabench;};
Valentin Reis's avatar
Valentin Reis committed
49
    numabench     = callPackage ./numabench  {src=numabench-src; hwloc = hwloc2;};
Valentin Reis's avatar
Valentin Reis committed
50
    excit         = callPackage ./excit      {src=excit-src;};
Valentin Reis's avatar
Valentin Reis committed
51
52
53
54
55
    nrm           = callPackage ./nrm        {src=nrm-src;};
    containers    = callPackage ./containers {src=containers-src;};
    libnrm        = callPackage ./libnrm     {src=libnrm-src;};
    libnrm-pinned = callPackage ./libnrm     {src=fetched libnrm/pin.json;};
    libnrm-pmpi   = libnrm.overrideAttrs (oldAttrs: rec {
Valentin Reis's avatar
Valentin Reis committed
56
57
58
      configureFlags = "--enable-pmpi";
      buildInputs = oldAttrs.buildInputs ++ [ pkgs.mpich2 ];
    });
59

Valentin Reis's avatar
Valentin Reis committed
60
61
    numabench-check = numabench.overrideAttrs(old: {
      buildPhase = "make check";
62
      installPhase =''
63
64
65
        mkdir -p $out/tests
        cp ./tests/*.log $out/tests
        cp ./tests/*.trs $out/tests
Valentin Reis's avatar
Valentin Reis committed
66
        cp -r ./tests/tmp $out/tests
67
        '';
Valentin Reis's avatar
Valentin Reis committed
68
69
70
71
72
    });
    excit-check = excit.overrideAttrs(old: {
      buildPhase = "make check";
    });

Valentin Reis's avatar
Valentin Reis committed
73
74
75
    # applications with replaceDependency for libnrm.
    repLibnrm = path: src: extra:
    let
Valentin Reis's avatar
Valentin Reis committed
76
      drv = callPackage path ({
Valentin Reis's avatar
style.    
Valentin Reis committed
77
78
79
        nrmSupport = true;
        src = src;
        libnrm = libnrm-pinned;
Valentin Reis's avatar
Valentin Reis committed
80
      }//extra);
Valentin Reis's avatar
style.    
Valentin Reis committed
81
      rebuilt = drv.override {libnrm = libnrm;};
Valentin Reis's avatar
Valentin Reis committed
82
83
84
85
86
87
      grafted = pkgs.replaceDependency {
        drv = drv;
        oldDependency = libnrm-pinned;
        newDependency = libnrm;
      };
    in if graftLibnrm then grafted else rebuilt;
Valentin Reis's avatar
Valentin Reis committed
88
89
90
91
    amg          = repLibnrm ./amg     amg-src     {};
    qmcpack      = repLibnrm ./qmcpack qmcpack-src {};
    openmc       = repLibnrm ./openmc  openmc-src  {};
    lammps       = repLibnrm ./lammps  lammps-src  {};
Valentin Reis's avatar
Valentin Reis committed
92
    stream       = repLibnrm ./stream  stream-src  {iterationCount="2000";};
Valentin Reis's avatar
Valentin Reis committed
93

94
    # data (static, non source overridable via arguments)
Valentin Reis's avatar
Valentin Reis committed
95
    openmc-data = fetched openmc/data.json;
Valentin Reis's avatar
Valentin Reis committed
96

97
98
99
100
    # tools
    zymake = callPackage ./zymake {
      inherit (pkgs.ocamlPackages) findlib ocamlbuild topkg batteries;
    };
Valentin Reis's avatar
Valentin Reis committed
101
102
    haskellPackages = pkgs.haskellPackages.override {
      overrides = self: super: with pkgs.haskell.lib;
Valentin Reis's avatar
Valentin Reis committed
103
      rec {
Valentin Reis's avatar
Valentin Reis committed
104
        panpipe        = (pkgs.haskell.lib.doJailbreak super.panpipe);
Valentin Reis's avatar
Valentin Reis committed
105
        spdx           = (pkgs.haskell.lib.doJailbreak super.spdx);
Valentin Reis's avatar
Valentin Reis committed
106
        generic-pretty = doJailbreak super.generic-pretty;
Valentin Reis's avatar
Valentin Reis committed
107

Valentin Reis's avatar
Valentin Reis committed
108
109
110
        #minor cabal and version fix
        panhandle    = (self.callCabal2nix "panhandle" (builtins.fetchGit {
                      inherit (panhandle-src) url rev; })) {};
Valentin Reis's avatar
Valentin Reis committed
111
        inline-r = dontCheck super.inline-r;
Valentin Reis's avatar
Valentin Reis committed
112
        #argo tools
Valentin Reis's avatar
Valentin Reis committed
113
114
115
116
117
        argotk      = (self.callCabal2nix "argotk"      argotk-src      ) {};
        argonix     = (self.callCabal2nix "argonix"     argonix-src     ) {};
        repoquality = (self.callCabal2nix "repoquality" repoquality-src ) {};
        powerplots  = (self.callCabal2nix "powerplots"  powerplots-src  ) {};

118
      };
Valentin Reis's avatar
Valentin Reis committed
119
    };
Valentin Reis's avatar
Valentin Reis committed
120

121
    # re-export from hpkgs and add non-haskell build rule specialization
Valentin Reis's avatar
Valentin Reis committed
122
123
124
    inherit (haskellPackages) repoquality;

    argotk = haskellPackages.argotk.overrideAttrs (old:{
Valentin Reis's avatar
Valentin Reis committed
125
126
127
128
129
130
131
132
133
134
135
136
        buildInputs=old.buildInputs ++ [pkgs.hwloc];
        installPhase = old.installPhase + ''
          mkdir $out/share/
          ARGOTK_SHARE=share $out/bin/argotk --bash-completion-script argotk > $out/share/argotk.sh
          cp -r share/* $out/share/
          substituteInPlace $out/share/simple-H2O.xml --replace \
                H2O.HF.wfs.xml $out/share/H2O.HF.wfs.xml
          substituteInPlace $out/share/simple-H2O.xml --replace \
                O.BFD.xml $out/share/O.BFD.xml
          substituteInPlace $out/share/simple-H2O.xml --replace \
                H.BFD.xml $out/share/H.BFD.xml
        '';
Valentin Reis's avatar
Valentin Reis committed
137
138
139
140
      });

    argonix = haskellPackages.argonix.overrideAttrs (old:{
        installPhase = old.installPhase + ''
Valentin Reis's avatar
Valentin Reis committed
141
          mkdir -p $out/share/
Valentin Reis's avatar
Valentin Reis committed
142
143
144
          $out/bin/argonix --bash-completion-script argonix > $out/share/argonix.sh
        '';
      });
145

Valentin Reis's avatar
Valentin Reis committed
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
    powerplots =
    let
      pkl = with pkgs.rPackages; [ docopt pracma tidyr readr magrittr formatR
          purrr wrapr knitr cowplot plotly lubridate dplyr ggplot2 fpp2
          prospectr gridExtra zoo xtable ggthemes data_table
        ];
      myR = (pkgs.rWrapper.override{ packages = [pkl];});
    in
    haskellPackages.powerplots.overrideDerivation (drv: rec {
      buildInputs = (drv.buildInputs or []) ++ [
        pkgs.makeWrapper
        myR
      ];

      installPhase = drv.installPhase + ''
        wrapProgram "$out/bin/powerplots" \
          --set R_LIBS_SITE `Rscript -e "Sys.getenv(\"R_LIBS_SITE\")"`
      '';

    });

167
    # fix for nrm
Valentin Reis's avatar
Valentin Reis committed
168
    pyzmq = pkgs.pythonPackages.pyzmq.override { zeromq3 = pkgs.zeromq; };
Valentin Reis's avatar
Valentin Reis committed
169

Valentin Reis's avatar
Valentin Reis committed
170
171
172
173
174
175
176
    hwloc2 = pkgs.hwloc.overrideAttrs (old:{
      src = pkgs.fetchurl {
        url = "https://download.open-mpi.org/release/hwloc/v2.0/hwloc-2.0.3.tar.gz";
        sha256 = "0707ml34ylrr8zwwhddp64q6q57248m9646f27jadcx5m93g5pk4";
      };
    });

177
    # archived for sake of the simplicity of this file
Valentin Reis's avatar
Valentin Reis committed
178
179
    zmcat = pkgs-old.haskellPackages.callPackage ./zmcat {};
    zmqat = pkgs-old.haskellPackages.zmqat;
180

181
    # ci/experimental environments
Valentin Reis's avatar
Valentin Reis committed
182
183
    test = pkgs.stdenv.mkDerivation rec {
      name = "testEnv";
184

Valentin Reis's avatar
Valentin Reis committed
185
186
187
188
189
190
191
192
193
194
195
196
197
198
      buildInputs = [
        # argotk runs mpiexec:
        pkgs.mpich2
        # argotk uses hwloc to choose CPU counts:
        pkgs.hwloc
        # these are needed for some reason:
        pkgs.coreutils
        pkgs.utillinux
        pkgs.git
        # argo tools
        argotk
        # argo components
        containers
        nrm
Valentin Reis's avatar
Valentin Reis committed
199
      ];
200

Valentin Reis's avatar
Valentin Reis committed
201
      #required to be able to build the drv.
202
      installPhase = "mkdir $out";
Valentin Reis's avatar
Valentin Reis committed
203
      unpackPhase = "true";
Valentin Reis's avatar
Valentin Reis committed
204

205
206
207
208
209
210
211
      __noChroot = true;
      shellHook =''
        echo ""
        echo "ENTERING ENVIRONMENT: Sources of impurity for this build are: /tmp/ /etc/argo/ /var/run/ /var/lock/".
        echo "ENTERING ENVIRONMENT: Moreover, sandboxing is disabled, in particular because of:"
        echo "ENTERING ENVIRONMENT: /tmp/nrm-* sockets, /etc/argo, /var/run/, /var/lock/ which all need read access. "
        echo "ENTERING ENVIRONMENT: until these components are patched to allow for alternative paths, no sandbox use is possible."
212
        source ${argotk}/share/argotk.sh # bash completion
213
        echo ""
214
      '';
215
      #argotk uses this environment variable.
216
      ARGOTK_SHARE = "${argotk}/share";
Valentin Reis's avatar
Valentin Reis committed
217
218
      OPENMC_CROSS_SECTIONS = "${openmc-data}/cross_sections.xml";
      OPENMC_PWD = "${argotk}/share/openmc";
Valentin Reis's avatar
Valentin Reis committed
219
    };
Valentin Reis's avatar
Valentin Reis committed
220

Valentin Reis's avatar
Valentin Reis committed
221
    testApplications = test.overrideAttrs (old:{
Valentin Reis's avatar
Valentin Reis committed
222
      name = "testEnv-with-applications";
223
      buildInputs = old.buildInputs ++ [
Valentin Reis's avatar
Valentin Reis committed
224
        lammps
225
        qmcpack
Valentin Reis's avatar
Valentin Reis committed
226
227
228
229
230
231
        openmc
        stream
        amg
        openmc-data
      ];
    });
Valentin Reis's avatar
Valentin Reis committed
232

233
    powerexpe = testApplications.overrideAttrs (old:{
Valentin Reis's avatar
Valentin Reis committed
234
235
      name = "power-experiments";
      buildInputs = old.buildInputs ++ [
236
237
        #debug tools
        pkgs.which
Valentin Reis's avatar
Valentin Reis committed
238
        #pkgs.sudo
Valentin Reis's avatar
Valentin Reis committed
239
        zmcat
240
241
        #experiment tools
        zymake
242
      ];
Valentin Reis's avatar
Valentin Reis committed
243
      buildPhase = "zymake ${experiments-src}/experiments/zymakefile";
Valentin Reis's avatar
Valentin Reis committed
244
245
246
247
      installPhase = ''
        mkdir -p $out
        cp -r o/* $out
      '';
Valentin Reis's avatar
Valentin Reis committed
248
    });
Valentin Reis's avatar
Valentin Reis committed
249

Valentin Reis's avatar
Valentin Reis committed
250
251
252
253
254
    analysis = pkgs.stdenv.mkDerivation rec {
      name = "analysis";
      src = experiments-src;

      #required to be able to build the drv.
Valentin Reis's avatar
Valentin Reis committed
255
256
257
      installPhase = ''
        mkdir -p $out
      '';
Valentin Reis's avatar
Valentin Reis committed
258
259
260
      unpackPhase = "true";

      buildInputs = [
261
        pkgs.pandoc
Valentin Reis's avatar
Valentin Reis committed
262
263
264
265
        (pkgs.rWrapper.override{ packages = with pkgs.rPackages; [
          pkgs.rlwrap
          pkgs.pandoc
          docopt
266
267
268
269
          pracma
          tidyr
          readr
          magrittr
Valentin Reis's avatar
Valentin Reis committed
270
271
          formatR
          purrr
272
          wrapr
Valentin Reis's avatar
Valentin Reis committed
273
274
275
276
277
278
          knitr
          cowplot
          plotly
          lubridate
          dplyr
          ggplot2
279
280
281
282
          fpp2
          prospectr
          gridExtra
          zoo
Valentin Reis's avatar
Valentin Reis committed
283
284
285
286
287
288
289
          xtable
          ggthemes
          data_table
        ];})
      ];
    };

290
291
    hanalysis = analysis.overrideAttrs (old:{
      buildInputs = old.buildInputs ++ [
Valentin Reis's avatar
Valentin Reis committed
292
293
294
295
296
        (haskellPackages.ghcWithPackages(p:[
          p.protolude
          p.optparse-applicative
          (p.inline-r.overrideAttrs(old:{doCheck=false;}))
        ]))
297
298
299
      ];
    });

Valentin Reis's avatar
Valentin Reis committed
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
    f = { mkDerivation, base, protolude, data-default
    , optparse-applicative, typed-process, inline-r
    , R, stdenv }:
    mkDerivation {
      pname = "hsr";
      version = "1.0.0";
      src = "";
      isLibrary = true;
      isExecutable = false;
      libraryHaskellDepends = [
        base
        protolude
        inline-r
        typed-process
        optparse-applicative
        data-default
      ];
      librarySystemDepends = [
        pkgs.pandoc
        R
        pkgs.rPackages.docopt
        pkgs.rPackages.pracma
        pkgs.rPackages.tidyr
        pkgs.rPackages.readr
        pkgs.rPackages.magrittr
        pkgs.rPackages.formatR
        pkgs.rPackages.purrr
        pkgs.rPackages.wrapr
        pkgs.rPackages.knitr
        pkgs.rPackages.cowplot
        pkgs.rPackages.plotly
        pkgs.rPackages.lubridate
        pkgs.rPackages.dplyr
        pkgs.rPackages.ggplot2
        pkgs.rPackages.fpp2
        pkgs.rPackages.prospectr
        pkgs.rPackages.gridExtra
        pkgs.rPackages.zoo
        pkgs.rPackages.xtable
        pkgs.rPackages.ggthemes
        pkgs.rPackages.data_table
      ];
      license = stdenv.lib.licenses.bsd3;
    };
    hanal = argolib.getHackEnv (pkgs//argopkgs)
      haskellPackages (haskellPackages.callPackage f {});

Valentin Reis's avatar
Valentin Reis committed
347
348
    report = analysis.overrideAttrs (old:{
      buildPhase = ''
349
350
        echo "analysis/zymakefolder.R ${powerexpe}"
        analysis/zymakefolder.R ${powerexpe}
Valentin Reis's avatar
Valentin Reis committed
351
352
353
354
355
356
      '';
      installPhase = ''
        mkdir -p $out
        cp -r index* $out
      '';
    });
357

358
    doArgotk = drv: command: drv.overrideAttrs (old:{
Valentin Reis's avatar
Valentin Reis committed
359
      buildPhase = "argotk "+command+" --verbose";
Valentin Reis's avatar
Valentin Reis committed
360
      installPhase = ''
Valentin Reis's avatar
Valentin Reis committed
361
        mkdir -p $out
Valentin Reis's avatar
Valentin Reis committed
362
363
364
        cp _output/* $out/
      '';
    });
365
366
367
368
    testHello       = doArgotk test "TestHello";
    testListen      = doArgotk test "TestListen";
    testPerfwrapper = doArgotk test "TestPerfwrapper";
    testPower       = doArgotk test "TestPower";
Valentin Reis's avatar
Valentin Reis committed
369
370
371
372
373
374
375
376
377
378
    testSTREAM      = doArgotk (test.overrideAttrs
      (old:{buildInputs=old.buildInputs++[ stream  ];})) "TestSTREAM";
    testAMG         = doArgotk (test.overrideAttrs
      (old:{buildInputs=old.buildInputs++[ amg     ];})) "TestAMG";
    testOpenMC      = doArgotk (test.overrideAttrs
      (old:{buildInputs=old.buildInputs++[ openmc  ];})) "TestOpenMC";
    testLAMMPS      = doArgotk (test.overrideAttrs
      (old:{buildInputs=old.buildInputs++[ lammps  ];})) "TestLAMMPS";
    testQMCPack     = doArgotk (test.overrideAttrs
      (old:{buildInputs=old.buildInputs++[ qmcpack ];})) "TestQMCPack";
379
    testAll         = doArgotk test "tests";
Valentin Reis's avatar
Valentin Reis committed
380

381
  };
382
# re-exporting a full nixpkgs-like package set
383
in pkgs // argopkgs