1. 27 Dec, 2008 3 commits
    • Liam Healy's avatar
      Updated tests; all pass · 64fea6a9
      Liam Healy authored
      Fixes to some definitions 
      lognormal, discrete: use #'mpointer
      lu: new syntax for making array
      quasi: order of arguments fixed in make-quasi-random-number-generator
      sorting: syntax to make combination
      All tests have been regenerated because syntax for arrays etc. has
      changed.  Visually inspected that results match previous check in.
    • Liam Healy's avatar
      New function #'mpointer replaces #'generator · e88a5593
      Liam Healy authored
      New function #'mpointer replaces #'generator for random functions.
    • Liam Healy's avatar
      Set mpointer vlaue, show relevant .h file; non-int return for reinitialize-instance · 8a0ac730
      Liam Healy authored
      In defmobject, set the mpointer value if #'allocate is being called.
      For each file that defines a defmobject, I put a comment at the top
      showing the relevant GSL header file.  For generators and quasi, the
      (re)initializing function returns void and not an :int, so that is
      changed in the defmobject definition, which now permits a list of two
      elements in initialize-suffix, with the second element indicating the
  2. 26 Dec, 2008 5 commits
    • Liam Healy's avatar
      Calling mobjects with #'mpointer, generic function #'name · 297c08b2
      Liam Healy authored
      GSL functions that take GSL objects as arguments must have #'mpointer
      called on each argument.  Created a generic function #'name and
      changed all the *-name (or name-*) functions that acted on mobjects to
      this function.
    • Liam Healy's avatar
      Full use of defmobject; elimination of letm · b09dc9d2
      Liam Healy authored
      All GSL objects are full CL objects with garbage collection.  There is
      no need to manually free the associated memory.  All objects may be
      assigned in the normal CL way, e.g. let, so there is not #'letm macro
      anymore.  Everything compiles cleanly in gsll, but nothing has been
    • Liam Healy's avatar
      New class foreign-array, new names: marray, make-marray, mobject.lisp · 7c66d57b
      Liam Healy authored
      New class foreign-array represents foreign (C) arrays, without GSL or
      mobject superclass.  New class name 'marray was 'gsl-data,
      representing arrays in GSL.  These objects are made by #'make-marray,
      formerely #'make-array*.  New file names: init/mobject.lisp was
      init/gsl-objects.lisp and data/marray.lisp was data/data.lisp.
    • Liam Healy's avatar
      Added wavelet defmobject · a9dda7c4
      Liam Healy authored
      Didn't see this in previous checkin.
    • Liam Healy's avatar
      Permit alternate origin of mpointer; #'clone · 38d9c4f4
      Liam Healy authored
      Redesign #'defmobject so that a new method #'allocate is defined that
      calls the standard GSL allocate function for each object.  Shrink the
      initialize-instance :after method to call #'allocate if the mpointer
      isn't given, and then set the finalizer.  This way, an :mpointer made
      by something other than the allocate function may be supplied to the
      make-instance, and the object will be made correctly.  This is used by
      #'clone functions in histogram and random number generators.  Not
      compiled or tested, but macroexpansions look right.
  3. 25 Dec, 2008 1 commit
  4. 24 Dec, 2008 2 commits
    • Liam Healy's avatar
      More GSL objects now defined with defmobject · e5e286ac
      Liam Healy authored
      More GSL objects now defined with defmobject; they look like they
      expand correctly but are not compiled.
    • Liam Healy's avatar
      GSL object makers with mixed arguments · adbbbbcd
      Liam Healy authored
      GSL objects made with defmobject and that have use at least one
      argument in some way for both initialization and reinitialization, or
      for using functions of those arguments, are accomodated with an
      optional argument 'arglists-function to defmobject.  This should be a
      function that produces three arglists: for the maker, the
      initialization method, and the reinitialization method.  The order of
      arguments generated for other cases is now preserved with :from-end in
      #'variables-used-in-c-arguments.  Examples for interpolation and
      acceleration (lookup), still commented out.
  5. 22 Dec, 2008 2 commits
    • Liam Healy's avatar
      Merge from master · d310adfd
      Liam Healy authored
      Merged in minor changes from master.
    • Liam Healy's avatar
      New class mobject, new hierarchy, clean up files · 9b588763
      Liam Healy authored
      Redefine 'mobject from 'gsl-object.  The class 'gsl-data in data.lisp
      is now a subclass of it, and does not explicitly have the mpointer
      slot, because mobject does.  Adapted #'defmobject to work with objects
      that have no "setter" (initialization).  This expands correctly for
      basis-splines (no setter) and hankel (setter).  The basis-splines
      defintions rely on the new mobjects.
  6. 16 Dec, 2008 1 commit
  7. 15 Dec, 2008 2 commits
    • Liam Healy's avatar
      Prototype defmobject · ed5ce113
      Liam Healy authored
      In gsl-objects, define a prototype defmobject which defines:
       - the class for the gsl object
       - initialize-instance :after method to correspond to GSL
        "alloc" and attach the finalizer,
       - define reinitialize-instance :after method to correspond to a setter
        or intialize in GSL,
       - define a make-<class-name> function that will be the customary user
        interface, and will call make-instance and possibly
        reinitialize-instance if defined.
      Worked up example in hankel.lisp.  This compiles successfully and
      looks correct, but has not been tested.
    • Liam Healy's avatar
  8. 14 Dec, 2008 1 commit
    • Liam Healy's avatar
      Changes to defmfun to permit method qualifiers and &key arguments · 92b0b413
      Liam Healy authored
      Add :qualifier argument to defmfun, used when methods are defined to
      allow qualifiers such as :after or :before.  Permit &key arguments.
      Check the :after argument to defmfun for usage of argument variables
      to prevent them from being declared ignored.  Note:  This uses
      stupid-code-walk-find-variables, and is, well, stupid.  These changes
      are all designed to permit the definition of #'initialize-instance and
      #'reinitialize-instance methods for GSL objects.
  9. 08 Dec, 2008 1 commit
    • Liam Healy's avatar
      Array input and output declarations · 1a2ebe96
      Liam Healy authored
      A somewhat comprhensive attempt to make sure :inputs, :outputs, and
      :return arguments in defmfuns match what the function is expecting and
      will return, so that non-native implementations will work correctly
      for copying, and native ones will work correctly for pinning.  The
      :return argument now defaults to :outputs in most circumstances.
  10. 07 Dec, 2008 2 commits
    • Liam Healy's avatar
      Non-native synchronization · bca08efd
      Liam Healy authored
      Define and call copy-cl-to-c and copy-c-to-cl only for non-native
      implementations; they include checks of the flags c-invalid and
      cl-invalid.  Make sure synchronization is called at the right points.
      Make sure that flags are set at the right points and cleared after a
      copy.  Not tested yet.  Any per-function problems are likely from
      incorrect listing of inputs and/or outputs.
    • Liam Healy's avatar
      Make FFA at initialize-instance time for gsl-data; restore permutations and combinations · 4c380808
      Liam Healy authored
      Instead of making the ffa in make-array*, we now make it in the
      initialize-instance :after method for gsl-data.  This means that
      subclasses (permutations, combinations) will automatically make the
      arrays.  Rewrote make-array* so that it is just a wrapper for
      make-instance, computing the dimensions from the specified initial
      parameters.  Permutations and combinations are now made with make-*
  11. 06 Dec, 2008 1 commit
    • Liam Healy's avatar
      Eliminate letm expansions etc. for data · 95be73ee
      Liam Healy authored
      The letm expansion definitions for arrays, permutations, and
      combinations has been eliminated.  These objects are now made with
      there own functions and may be created anywhere, not necessarily
      inside a letm.
  12. 01 Dec, 2008 1 commit
    • Liam Healy's avatar
      GSL array making with make-array* and #m · 83cd8040
      Liam Healy authored
      GSL arrays are garbage-collected objects, and so can be made like any
      other lisp object; they do not need to be make inside a wrapper form.
      #m is a macro which makes them; it expands to a #'make-array* call.
      Examples and usage ported to this new form.  Compiled only; not tested
      yet.  No effort to port to non-native implementation yet; tests as
      expanded in the tests/ directory are not ported yet.
  13. 29 Nov, 2008 2 commits
  14. 28 Nov, 2008 1 commit
    • Liam Healy's avatar
      Native arrays do not need wrapper · 9b1ed35d
      Liam Healy authored
      Native arrays are now completely dynamic, i.e., they are garbarge
      collected and there is no need for any kind of wrapper, because the
      with-pinned-objects is wrapped at the defmfun level.  Most tests pass
      on SBCL, but there are still a number that fail.  The GSL parts are
      always present; there is potentially unnecessary allocation of all
      GSL-required structs at creation time, which might merit some
      investigation for a more just-in-time creation procedure.  Potential
      problems on non-native implementations completely uninvestigated.
  15. 23 Nov, 2008 1 commit
    • Liam Healy's avatar
      Finalizer in alloc-gsl-struct replaces free-gsl-struct · 87723ec1
      Liam Healy authored
      Using trivial-garbage to define a portable finalizer in
      #'alloc-gsl-struct.  Removed #'free-gsl-struct; #'expand-data no
      longer calls #'free-gsl-struct.  As in the old free-gsl-struct, the
      finalizer removes the gsl-vector-c or gsl-matrix-c, and the
      gsl-block-c if applicable.  Test results are the same (1 failure for
      unrelated reason).
  16. 17 Nov, 2008 1 commit
    • Liam Healy's avatar
      Analysis of port progress; improve documentation · ebf82b24
      Liam Healy authored
      Started in file init/analysis.lisp some definitions that will aid in
      gauging how much of GSL GSLL covers.  It will not normally be loaded
      (and depends on port system which is not required for GSLL) because it
      is mainly used by developers.  It is not yet finished.  Hash size for
      *gsl-symbol-equivalence* increased to reflect actual number of symbols
      present when GSLL is loaded.  Improved documentation.
  17. 16 Nov, 2008 5 commits
    • Liam Healy's avatar
      Renamed conditions to more lisp-like names · 4f2c390f
      Liam Healy authored
      Renamed conditions in init/conditions.lisp and elsewhere to be more
      lisp like; e.g. EDOM is not 'input-domain.  All tests except one pass.
    • Liam Healy's avatar
      Tests in separate system gsll-tests · f42d6f00
      Liam Healy authored
      Tests are now separated from examples and defined in a new system
      gsll-tests.  Change name of condition 'input-error from 'EDOM.
    • Liam Healy's avatar
      Sclar addition/multiplication use doubles for the scalar · 9b15d4b5
      Liam Healy authored
      GSL uses doubles for scalar addition and multiplication, regardless of
      the element type of the array, so modified the definitions of #'m*c,
      #'m+c accordingly.
    • Liam Healy's avatar
      Updated documentation · 817cdcef
      Liam Healy authored
      New dependency; simplified terminology.
    • Liam Healy's avatar
      Removed dependence on FFA and iterate · c561b4d5
      Liam Healy authored
      By incorporating a few definitions modified from Tamas Papp's FFA
      directly into GSLL, there is no dependence anymore on FFA separately.
      With the conversion of a few definitions, the dependency on iterate
      has therefore been eliminated also.  This compiles without errors or
      warnings on SBCL.
  18. 12 Nov, 2008 3 commits
    • Liam Healy's avatar
      Include #'make-ffa · 22f2a25f
      Liam Healy authored
      Include #'make-ffa from Tamas Papp's ffa/ffa.lisp to
      foreign-friendly.lisp and eliminate the call to
      #'match-array-element-type, so that 'element-type must be a CL type.
      Temporarily rename this to #'make-ffa*; once I no longer load or
      import ffa, it can be renamed back to #'make-ffa.
    • Liam Healy's avatar
      New function #'cl-cffi renamed from #'cl-ffa · d9e5bb32
      Liam Healy authored
      To make terminology consistent, the "C standard" form of type, also
      what I call "CFFI" form, is called that instead of "FFA" in some
      places.  Specifically, #'cl-cffi is renamed from #'cl-ffa and now the
      name matches the already-existing #'cffi-cl.
    • Liam Healy's avatar
      Delete early experiment with foreign-friendly arrays · 1e3e4a57
      Liam Healy authored
      In early experimentation with foreign-friendly arrays, I developed a
      way to directly use the foreign-friendly arrays in GSL code using raw
      C arrays.  This was successful.  Subsequently, I rewrote the gsl-data
      objects to have foreign-friendly arrays underlying them, whether they
      create raw C arrays, GSL arrays, or both, so the early experiment is
      obsolete and is deleted in this commit.
  19. 09 Nov, 2008 5 commits
    • Liam Healy's avatar
      Tests for BLAS2 and BLAS3 · 1518473a
      Liam Healy authored
      Added tests for all array element types for BLAS2 and BLAS3.  Those
      functions that take complex scalars as arguments will not work due to
      CFFI's lack of support for passing structs directly.  The rank n
      update functions in BLAS2 gives an "Matrix, vector lengths are not
      conformant" error (EBADLEN), which needs to be tracked down.
      Therefore, none of these tests are defined in either file.  Fixed
      arguments to C function in #'matrix-product-symmetric and
      #'inverse-matrix-product in BLAS3.
    • Liam Healy's avatar
      BLAS1 tests · 4c095d18
      Liam Healy authored
      Defined a complete set of BLAS1 tests for all element types.  The
      duplicate Givens function and the "modified" Givens rotations, which
      are not explained in the GSL documentation, are excluded.
    • Liam Healy's avatar
      Sorting tests, definitions for matrices · 135620f7
      Liam Healy authored
      Define some sorting functions for matrices, using the gsl_sort
      functions that work on C pointers.  Define sorting tests for all
      element types.  Update documentation to clarify lack of stride option.
    • Liam Healy's avatar
      Mean and variance for all arrays · 370307e4
      Liam Healy authored
      Define mean and variance functions for matrices as well as vectors.
      This required a modification to #'expand-defmfun-generic and to
      #'actual-array-c-type to permit the use of "both" when there is an
      optional argument, and thus two C argument lists.  Defined tests for
      all unweighted functions and element types.  Because there appears to
      be a bug in the GSL library in computing single floats, no tests have
      yet been defined for these functions.
    • Liam Healy's avatar
      Create vector-only and matrix-only tests · af2866c2
      Liam Healy authored
      Create vector-only and matrix-only tests, and eliminate old comments
      and test definitions.  Define outputs and returns for some vector and
      matrix functions that didn't have them.