cls.asd

   1 ;;  -*- mode: lisp -*-
   2 ;;; Time-stamp: <2012-10-05 04:09:33 tony>
   3 ;;; Created:    <2005-05-30 17:09:47 blindglobe>
   4 ;;; File:       cls.asd
   5 ;;; Author:     AJ Rossini <blindglobe@gmail.com>
   6 ;;; Copyright:  (c) 2005--2010, by AJ Rossini <blindglobe@gmail.com>
   7 ;;; License:    MIT, see the file LICENSE.mit in this directory for details.
   8 ;;; Purpose:    ASDF specification for Common Lisp Statistical System
   9
  10 ;;; What is this talk of 'release'? Klingons do not make software
  11 ;;; 'releases'.  Our software 'escapes', leaving a bloody trail of
  12 ;;; designers and quality assurance people in its wake.
  13
  14 ;; Load ASDF if it isn't loaded -- BUT we need to ensure that we sync
  15 ;; properly with the new ASDF!  Maybe we should make the git repo a
  16 ;; submodule, and tag a particular version to use, pulling that
  17 ;; version?  However, most "modern" CLs use the "new" (>=v2) ASDF.
  18
  19 #-asdf(load (pathname (concatenate 'string (namestring *cls-external-dir*) "asdf")))
  20
  21 (in-package :cl-user)
  22
  23 ;;(pushnew *cls-asdf-dir* asdf:*central-registry*)
  24 ;;(pushnew #p"C:/Lisp/libs/" asdf-util:*source-dirs* :test #'equal) ; eg for Microsoft
  25
  26 (cl:defpackage #:cls-system
  27     (:use :common-lisp :asdf))
  28
  29 (in-package #:cls-system)
  30
  31 ;;; To avoid renaming everything from *.lsp to *.lisp...  borrowed
  32 ;;; from Cyrus Harmon's work, for example for the ch-util.  NOT secure
  33 ;;; against serving multiple architectures/hardwares from the same
  34 ;;; file system (i.e. PPC and x86 would not be differentiated).
  35 ;;; However, this might be more of a solution for quicklisp?
  36
  37 (defclass cls-lsp-source-file (cl-source-file) ())
  38 (defparameter *fasl-directory*
  39    (make-pathname :directory '(:relative
  40                                #+sbcl "fasl-sbcl"
  41                                #+openmcl "fasl-ccl"
  42                                #+openmcl "fasl-ccl"
  43                                #+cmu "fasl-cmucl"
  44                                #+clisp "fasl-clisp"
  45                                #-(or sbcl openmcl clisp cmucl) "fasl"
  46                                )))
  47
  48 ;;; Handle Luke's *.lsp suffix
  49 (defmethod source-file-type ((c cls-lsp-source-file) (s module)) "lsp")
  50 (defmethod asdf::output-files :around ((operation compile-op)
  51                                        (c cls-lsp-source-file))
  52   (list (merge-pathnames *fasl-directory*
  53                          (compile-file-pathname (component-pathname c)))))
  54 ;;; again, thanks to Cyrus for saving me time...
  55
  56
  57 (defsystem "cls"
  58   :name "Common Lisp Statistical System"
  59   :version #.(with-open-file
  60                  (vers (merge-pathnames "version.lisp-expr" *load-truename*))
  61                (read vers))
  62   :author "A.J. Rossini <blindglobe@gmail.com>"
  63   :license "MIT"
  64   :description "Common Lisp Statistics (CLS): A System for Statistical
  65   Computing with Common Lisp; based on Common LispStat (CLS alpha1) by
  66   Luke Tierney <luke@stat.uiowa.edu> (apparently originally written
  67   when Luke was at CMU, on leave at Bell Labs?).  Last touched by him
  68   in 1991, then by AJR starting in 2005."
  69   :serial t
  70   :depends-on (;;  :cldoc  ;; documentation tool? (not Lit Prog, but coding support)
  71                ;;  :cffi   ;; only needed within lisp-matrix
  72                :xarray
  73                :lisp-matrix ;; on fnv, cl-blapack, ffa
  74                :listoflist
  75                :lift
  76                :rsm-string ;; need something for importing CSV files into listoflist or arrays.
  77                ;;; need to select pRNG stream system
  78                ;; :cl-random ;; or cl-variates, or...?
  79                :cl-variates
  80                ;;; if graphics exist, then...
  81                ;; :cl-cairo2  :cl-2d
  82                )
  83   :components ((:static-file "version" :pathname #p"version.lisp-expr")
  84                (:static-file "LICENSE.mit")
  85                (:static-file "README")
  86
  87                (:module
  88                 "packaging"
  89                 :pathname #p"src/"
  90                 :serial t
  91                 :components
  92                 ((:file "packages")
  93                  (:file "config")))
  94
  95                (:module
  96                 "proto-objects"
  97                 :pathname "src/objsys/"
  98                 :serial t
  99                 :depends-on ("packaging")
 100                 :components
 101                 ((:cls-lsp-source-file "lsobjects")))
 102
 103                (:module "cls-core"
 104                         :pathname "src/basics/"
 105                         :serial t
 106                         :depends-on ("packaging" "proto-objects")
 107                         :components
 108                         ((:cls-lsp-source-file "lstypes")
 109                          (:cls-lsp-source-file "lsfloat")
 110
 111                          (:cls-lsp-source-file "compound")
 112                          (:cls-lsp-source-file "lsmacros"
 113                                                     :depends-on ("compound"))
 114
 115                          (:cls-lsp-source-file "lsmath"
 116                                                     :depends-on ("compound"
 117                                                                  "lsmacros"
 118                                                                  "lsfloat"))))
 119
 120 ;;             (:module
 121 ;;              "numerics-internal"
 122 ;;              :pathname "src/numerics/"
 123 ;;              :depends-on ("packaging" "proto-objects" "cls-core")
 124 ;;              :components
 125 ;;              ((:cls-lsp-source-file "cffiglue")
 126 ;;               (:cls-lsp-source-file "dists"
 127 ;;                                          :depends-on ("cffiglue"))
 128 ;; #|
 129 ;;               (:cls-lsp-source-file "matrices"
 130 ;;                                          :depends-on ("cffiglue"))
 131 ;;               (:cls-lsp-source-file "ladata"
 132 ;;                                          :depends-on ("cffiglue"
 133 ;;                                                       "matrices"))
 134 ;;               (:file "linalg"
 135 ;;                      :depends-on ("cffiglue"
 136 ;;                                   "matrices"
 137 ;;                                   "ladata"))
 138 ;; |#
 139 ;;               ))
 140
 141
 142                ;; Dataframes and statistical structures.
 143                (:module
 144                 "stat-data"
 145                 :pathname "src/data/"
 146                 :depends-on ("packaging"
 147                              "proto-objects"
 148                              "cls-core"
 149                              ;; "numerics-internal"
 150                              )
 151                 :components
 152                 ((:file "dataframe")
 153                  (:file "dataframe-array")
 154                  (:file "dataframe-matrixlike")
 155                  (:file "dataframe-listoflist")
 156                  (:file "data")
 157                  (:file "data-xls-compat")
 158                  (:file "import")))
 159
 160                (:module
 161                 "cls-basics"
 162                 :pathname "src/basics/"
 163                 :depends-on ("packaging"
 164                              "proto-objects"
 165                              "cls-core"
 166                              ;; "numerics-internal"
 167                              "stat-data")
 168                 :components
 169                 ((:cls-lsp-source-file "lsbasics")))
 170
 171
 172
 173                (:module
 174                 "descriptives"
 175                 :pathname "src/describe/"
 176                 :depends-on ("packaging"
 177                              "proto-objects"
 178                              "cls-core"
 179                              ;; "numerics-internal"
 180                              "stat-data"
 181                              "cls-basics")
 182                 :components
 183                 ((:cls-lsp-source-file "statistics")))
 184 #|
 185                (:module
 186                 "visualize"
 187                 :pathname "src/visualize/"
 188                 :depends-on ("cls-core")
 189                 :components
 190                 ((:file "plot")))
 191 |#
 192
 193 #|
 194
 195 ;;; FIXME:  OPTIMIZE USES ORIG CLS CFFI-based LIBCODE, NEED TO REPLACE WITH ALT MINIMIZERS
 196                (:module
 197                 "optimization"
 198                 :pathname "src/numerics/"
 199                 :depends-on ("packaging"
 200                              "proto-objects"
 201                              "cls-core"
 202                              ;; "numerics-internal"
 203                              "stat-data"
 204                              "cls-basics")
 205                 :components
 206                 ((:file "optimize")))
 207
 208
 209                ;; Applications
 210                (:module
 211                 "stat-models"
 212                 :pathname "src/stat-models/"
 213                 :depends-on ("packaging"
 214                              "proto-objects"
 215                              "cls-core"
 216                              ;;   "numerics-internal"
 217                              "cls-basics"
 218                              "descriptives"
 219                              "optimization")
 220                 :components
 221                 ((:file "regression")
 222                  ;; (:cls-lsp-source-file "nonlin"
 223                  ;;       :depends-on ("regression"))
 224                  ;; (:cls-lsp-source-file "bayes"
 225                  ;;       :depends-on ("regression"))
 226                  ))
 227 |#
 228
 229                ;; Applications
 230                (:module
 231                 "example-data"
 232                 :pathname "Data/"
 233                 :depends-on ("packaging"
 234                              "proto-objects"
 235                              "cls-core"
 236                              ;; "numerics-internal"
 237                              "cls-basics"
 238                              "descriptives"
 239                              ;;  "optimization"
 240                              )
 241                 :components
 242                 ((:file "examples")
 243                  (:cls-lsp-source-file "absorbtion")
 244                  (:cls-lsp-source-file "diabetes")
 245                  (:cls-lsp-source-file "leukemia")
 246                  (:cls-lsp-source-file "randu")
 247                  (:cls-lsp-source-file "aircraft")
 248                  (:cls-lsp-source-file "metabolism")
 249                  (:cls-lsp-source-file "book")
 250                  (:cls-lsp-source-file "heating")
 251                  (:cls-lsp-source-file "oxygen")
 252                  (:cls-lsp-source-file "stackloss")
 253                  (:cls-lsp-source-file "car-prices")
 254                  (:cls-lsp-source-file "iris")
 255                  (:cls-lsp-source-file "puromycin")
 256                  (:cls-lsp-source-file "tutorial")))
 257
 258                (:module
 259                  "lisp-stat-unittest"
 260                 :depends-on  ("packaging" "proto-objects"
 261                               "cls-core"
 262                               ;; "numerics-internal"
 263                               "stat-data"
 264                               "cls-basics"
 265                               "descriptives"
 266                               ;; "optimization"
 267                               ;; "stat-models"
 268                               "example-data")
 269                  :pathname "src/unittests/"
 270                  :components ((:file "unittests")
 271                               (:file "unittests-lstypes" :depends-on ("unittests"))
 272                               (:file "unittests-specfn" :depends-on ("unittests"))
 273                               ;;    (:file "unittests-prob" :depends-on ("unittests"))
 274                               (:file "unittests-proto" :depends-on ("unittests"))
 275                               (:file "unittests-regression" :depends-on ("unittests"))
 276                               (:file "unittests-listoflist" :depends-on ("unittests"))
 277                               (:file "unittests-arrays" :depends-on ("unittests"))
 278                               (:file "unittests-dataframe" :depends-on ("unittests"))))))
 279
 280 #|
 281
 282 ;;; NEED TO ADD A TEST OPERATION
 283  (defmethod perform ((o test-op) (c (eql (find-system :cls))))
 284     (describe (lift:run-tests :suite 'lisp-stat-unittests::lisp-stat-ut)))
 285 |#