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Revision 2299 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Fri Oct 17 16:07:38 2008 UTC (10 years, 4 months ago) by dmbates
File length: 9658 byte(s)
Diff to previous 2281
Compile only the UF_long version of SparseSuite but setting UF_long to be int

Revision 2281 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Oct 4 03:19:14 2008 UTC (10 years, 4 months ago) by dmbates
File length: 9610 byte(s)
Diff to previous 2276
SparseSuiteQR interface

Revision 2276 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Oct 2 01:56:28 2008 UTC (10 years, 4 months ago) by dmbates
File length: 9582 byte(s)
Diff to previous 2239
Add dgCMatrix_SPQR and modify other code to allow its compilation and linkage

Revision 2239 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Jul 28 19:26:40 2008 UTC (10 years, 6 months ago) by mmaechler
File length: 9550 byte(s)
Diff to previous 2217
make diagonalMatrix extend sparseM* instead dense*; dgCMatrix_qrsol(.,., order) {in hidden lm.fit.sparse()}

Revision 2217 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Jul 17 20:20:26 2008 UTC (10 years, 7 months ago) by dmbates
File length: 9550 byte(s)
Diff to previous 2210
Replace dtCMatrix_solve by more general dtCMatrix_sparse_solve and add new solve method

Revision 2210 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Jul 16 22:20:22 2008 UTC (10 years, 7 months ago) by dmbates
File length: 9544 byte(s)
Diff to previous 2203
Remove vestigial methods based on the parent array; new solve method for signature(a = "dtCMatrix", b = "sparseMatrix")

Revision 2203 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Jun 14 20:09:17 2008 UTC (10 years, 8 months ago) by mmaechler
File length: 9721 byte(s)
Diff to previous 2157
C based encodeInd() -> faster indexing; any()/all() for nsparse; printSpMatrix2(); show(<diag>)

Revision 2157 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Mar 25 15:00:01 2008 UTC (10 years, 10 months ago) by maechler
File length: 9661 byte(s)
Diff to previous 2147
BunchKaufman(); fix <ddi> o <numeric> bug; Version++

Revision 2147 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Mar 19 15:34:36 2008 UTC (10 years, 11 months ago) by bates
File length: 9630 byte(s)
Diff to previous 2145
Hidden function ldetL2up to evaluate log-determinant of updated Cholesky factor for a vector of multiples of the identity

Revision 2145 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Mar 19 14:00:47 2008 UTC (10 years, 11 months ago) by bates
File length: 9594 byte(s)
Diff to previous 2142
Add Imult argument to Cholesky

Revision 2142 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Mar 18 15:02:23 2008 UTC (10 years, 11 months ago) by bates
File length: 9594 byte(s)
Diff to previous 2140
update method for CHMfactor; change return type of exported C function chm_factor_update

Revision 2140 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Mar 18 01:03:48 2008 UTC (10 years, 11 months ago) by bates
File length: 9560 byte(s)
Diff to previous 2137
Added chm_factor_update, documentation and tests

Revision 2137 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Mar 17 22:21:24 2008 UTC (10 years, 11 months ago) by maechler
File length: 9528 byte(s)
Diff to previous 2134
my fast determinant(<dsC..>) versions

Revision 2134 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Mar 17 18:53:43 2008 UTC (10 years, 11 months ago) by bates
File length: 9470 byte(s)
Diff to previous 2125
Log-determinant of the parent matrix from a CHMfactor object as chm_factor_ldetL2; documentation and support

Revision 2125 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Fri Mar 7 07:58:26 2008 UTC (10 years, 11 months ago) by maechler
File length: 9404 byte(s)
Diff to previous 2119
diagN2U() for preserving (unit-)triangularity in sparse (triang.)matrix multiplication

Revision 2119 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Mar 4 21:44:04 2008 UTC (10 years, 11 months ago) by maechler
File length: 9371 byte(s)
Diff to previous 2115
use CALLDEF and RREGDEF macros

Revision 2115 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Feb 23 09:23:17 2008 UTC (10 years, 11 months ago) by maechler
File length: 16082 byte(s)
Diff to previous 2112
+ forceSymmetric(); generalize ddense_to_symmetric to dense_to_s.. and ddense_band to dense_band allowing simplified methods;  Matrix() and many man/*Rd : replace many as(*, <specific>) by as(*, <virtual superclass>)

Revision 2112 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Feb 18 08:24:46 2008 UTC (11 years ago) by maechler
File length: 16086 byte(s)
Diff to previous 2109
new symmpart(), skewpart()

Revision 2109 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Jan 26 20:18:03 2008 UTC (11 years ago) by maechler
File length: 15911 byte(s)
Diff to previous 2049
new .Call(Tsparse_to_tCsparse,*)

Revision 2049 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Aug 14 22:22:24 2007 UTC (11 years, 6 months ago) by bates
File length: 15847 byte(s)
Diff to previous 2007
Remove deprecated function writeHB and its methods; switch writeMM to use CHOLMOD code; repair readMM

Revision 2007 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Jul 19 19:45:48 2007 UTC (11 years, 7 months ago) by bates
File length: 15769 byte(s)
Diff to previous 2005
Export triplet_to_sparse, documentation, use typedefs

Revision 2005 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Jul 18 14:46:20 2007 UTC (11 years, 7 months ago) by maechler
File length: 15681 byte(s)
Diff to previous 1968
norm() for sparse; systematic checking of norm() and all "Summary" methods

Revision 1968 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Jul 7 22:49:12 2007 UTC (11 years, 7 months ago) by maechler
File length: 15681 byte(s)
Diff to previous 1911
Rsparse validation methods; finally make use of slot_dup() macro; fix R_to_C (symmetric)

Revision 1911 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Jun 19 16:16:58 2007 UTC (11 years, 8 months ago) by maechler
File length: 15503 byte(s)
Diff to previous 1907
colSums, ... rowMeans for all Matrices; notably sparse ones via [diln]gCMatrix_colSums C code

Revision 1907 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Jun 18 16:12:45 2007 UTC (11 years, 8 months ago) by bates
File length: 15323 byte(s)
Diff to previous 1901
Added Matrix_lengthSym

Revision 1901 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Jun 16 15:52:56 2007 UTC (11 years, 8 months ago) by bates
File length: 15281 byte(s)
Diff to previous 1895
added dgCMatrix_colSums for [col,row][Sums,Means]

Revision 1895 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Fri Jun 15 18:19:23 2007 UTC (11 years, 8 months ago) by bates
File length: 15221 byte(s)
Diff to previous 1862
added lm.fit.sparse (unexported), coercion of "factor" to dgCMatrix and dgCMatrix_cholsol

Revision 1862 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sun Jun 3 14:42:03 2007 UTC (11 years, 8 months ago) by bates
File length: 15161 byte(s)
Diff to previous 1844
Yet another cholmod export - cholmod_ssmult

Revision 1844 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed May 16 20:40:34 2007 UTC (11 years, 9 months ago) by bates
File length: 15083 byte(s)
Diff to previous 1828
Added solve methods for CHMfactor class

Revision 1828 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Apr 25 22:23:31 2007 UTC (11 years, 9 months ago) by bates
File length: 14967 byte(s)
Diff to previous 1761
Export another CHOLMOD function

Revision 1761 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sun Feb 4 19:33:36 2007 UTC (12 years ago) by bates
File length: 14879 byte(s)
Diff to previous 1758
Fix a cut-and-paste error

Revision 1758 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Feb 3 16:34:51 2007 UTC (12 years ago) by maechler
File length: 14879 byte(s)
Diff to previous 1747
workaround platform-dependent segfault in R_to_CMatrix

Revision 1747 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Jan 29 20:17:33 2007 UTC (12 years ago) by maechler
File length: 14622 byte(s)
Diff to previous 1725
many more coercions for diag(), "!", etc; see ChangeLog

Revision 1725 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Jan 17 08:01:10 2007 UTC (12 years, 1 month ago) by maechler
File length: 13841 byte(s)
Diff to previous 1716
accomplished quite a few small FIXMEs; see ChangeLog

Revision 1716 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Jan 6 02:01:24 2007 UTC (12 years, 1 month ago) by bates
File length: 13768 byte(s)
Diff to previous 1710
export cholmod_scale

Revision 1710 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Dec 26 15:57:06 2006 UTC (12 years, 1 month ago) by maechler
File length: 13692 byte(s)
Diff to previous 1703
more "[<-" fixes; validity of triangular sparse

Revision 1703 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Fri Dec 15 10:16:51 2006 UTC (12 years, 2 months ago) by bates
File length: 13572 byte(s)
Diff to previous 1688
Export cholmod_change_factor and cholmod_factor_to_sparse

Revision 1688 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Dec 9 00:29:45 2006 UTC (12 years, 2 months ago) by bates
File length: 13396 byte(s)
Diff to previous 1665
export cholmod_analyze_p; new version

Revision 1665 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Fri Nov 3 23:18:07 2006 UTC (12 years, 3 months ago) by maechler
File length: 13216 byte(s)
Diff to previous 1661
fully-sparse solve() for dsC; indexing & comparison fixes

Revision 1661 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Nov 2 13:10:50 2006 UTC (12 years, 3 months ago) by maechler
File length: 13145 byte(s)
Diff to previous 1660
2nd round of cleanup for <sparse>_validate()

Revision 1660 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Nov 2 11:05:35 2006 UTC (12 years, 3 months ago) by maechler
File length: 13650 byte(s)
Diff to previous 1659
tcrossprod(<Csp>, <Csp>); dimnames for [t]crossprod; validity now ensures correct length(Dimnames[[j]])

Revision 1659 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Nov 1 17:50:15 2006 UTC (12 years, 3 months ago) by maechler
File length: 13681 byte(s)
Diff to previous 1657
extend Csparse_Csparse_crossprod for tcrossprod (need test!); isSymmetric improved; misc.

Revision 1657 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Nov 1 16:29:53 2006 UTC (12 years, 3 months ago) by bates
File length: 13682 byte(s)
Diff to previous 1646
crossprod(<CsparseMatrix>,<CsparseMatrix>) added

Revision 1646 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sun Oct 22 22:42:40 2006 UTC (12 years, 4 months ago) by bates
File length: 13606 byte(s)
Diff to previous 1641
Export yet another cholmod routine

Revision 1641 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Fri Oct 20 15:04:40 2006 UTC (12 years, 4 months ago) by bates
File length: 13510 byte(s)
Diff to previous 1634
Change cholmod to use Rprintf and R's error handler

Revision 1634 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Oct 16 13:42:29 2006 UTC (12 years, 4 months ago) by bates
File length: 13508 byte(s)
Diff to previous 1629
Export cholmod_sort

Revision 1629 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Fri Oct 13 12:51:11 2006 UTC (12 years, 4 months ago) by bates
File length: 13433 byte(s)
Diff to previous 1618
minor corrections

Revision 1618 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Fri Oct 6 15:44:01 2006 UTC (12 years, 4 months ago) by maechler
File length: 13427 byte(s)
Diff to previous 1613
Matrix(0, d,d) should also give sparse (not diagonal); general_to_symmetric; notably for lsC*; more coercions; first cut at Csparse_drop()

Revision 1613 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Oct 4 22:41:49 2006 UTC (12 years, 4 months ago) by bates
File length: 13302 byte(s)
Diff to previous 1594
New release to export more CCallable functions

Revision 1594 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Sep 28 22:31:21 2006 UTC (12 years, 4 months ago) by bates
File length: 12914 byte(s)
Diff to previous 1570
Export more functions from cholmod for use in Zt_create

Revision 1570 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Sep 16 16:23:49 2006 UTC (12 years, 5 months ago) by maechler
File length: 12748 byte(s)
Diff to previous 1555
rename lcsc_to_matrix to ncsc_* and write new lcsc_*()

Revision 1555 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Sep 13 14:47:28 2006 UTC (12 years, 5 months ago) by bates
File length: 12694 byte(s)
Diff to previous 1548
Move checks on column sorting of CsparseMatrix objects to Csparse_validate

Revision 1548 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Sep 11 22:13:07 2006 UTC (12 years, 5 months ago) by maechler
File length: 12688 byte(s)
Diff to previous 1546
new nMatrix and subclasses; lsparse change to have x slot; many consequences

Revision 1546 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Sep 11 14:49:05 2006 UTC (12 years, 5 months ago) by bates
File length: 12682 byte(s)
Diff to previous 1507
Move the alloc_d**Matrix utility functions from the Matrix package to the lme4 package

Revision 1507 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Sep 4 18:41:34 2006 UTC (12 years, 5 months ago) by bates
File length: 13003 byte(s)
Diff to previous 1465
Merging changes from Matrix-nolmer branch

Revision 1465 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Aug 30 03:05:59 2006 UTC (12 years, 5 months ago) by bates
File length: 13508 byte(s)
Diff to previous 1458
housekeeping

Revision 1458 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Aug 29 00:04:48 2006 UTC (12 years, 5 months ago) by bates
File length: 15137 byte(s)
Diff to previous 1453
Remove vestigial classed argument for dsCMatrix_matrix_solve

Revision 1453 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sun Aug 27 16:16:35 2006 UTC (12 years, 5 months ago) by bates
File length: 15445 byte(s)
Diff to previous 1451
Added triu, tril and band for ddenseMatrix objects.

Revision 1451 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Aug 26 17:25:57 2006 UTC (12 years, 5 months ago) by bates
File length: 15451 byte(s)
Diff to previous 1448
Added initial version of dgeMatrix_band but may change design

Revision 1448 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Aug 26 03:29:36 2006 UTC (12 years, 5 months ago) by bates
File length: 15397 byte(s)
Diff to previous 1447
Move methods to the CsparseMatrix class

Revision 1447 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Fri Aug 25 20:38:36 2006 UTC (12 years, 5 months ago) by maechler
File length: 15343 byte(s)
Diff to previous 1436
use setAs("ddenseMatrix", "dgeMatrix", *) instead of older specific ones

Revision 1436 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Aug 24 18:22:39 2006 UTC (12 years, 5 months ago) by bates
File length: 15331 byte(s)
Diff to previous 1432
Use dup_mMatrix_as_dgeMatrix

Revision 1432 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Aug 24 16:21:18 2006 UTC (12 years, 5 months ago) by maechler
File length: 15357 byte(s)
Diff to previous 1425
eliminate classed argument from dup_mM*() and dependencies

Revision 1425 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Aug 23 21:25:32 2006 UTC (12 years, 6 months ago) by bates
File length: 15357 byte(s)
Diff to previous 1421
Remove classes lCholCMatrix and dCholCMatrix, now using CHMfactor classes instead

Revision 1421 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Aug 22 22:50:38 2006 UTC (12 years, 6 months ago) by bates
File length: 15265 byte(s)
Diff to previous 1413
Comment out vestigial functions

Revision 1413 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Aug 22 17:25:24 2006 UTC (12 years, 6 months ago) by bates
File length: 15247 byte(s)
Diff to previous 1396
register dup_mMatrix_as_dgeMatrix for coercions.

Revision 1396 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sun Aug 20 03:17:19 2006 UTC (12 years, 6 months ago) by bates
File length: 15173 byte(s)
Diff to previous 1385
Added methods for sparseQR for qr.qy, qr.qty, qr.coef, qr.resid and qr.fitted

Revision 1385 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Aug 17 22:30:01 2006 UTC (12 years, 6 months ago) by bates
File length: 14921 byte(s)
Diff to previous 1383
Added solve methods for dgCMatrix and documentation

Revision 1383 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Aug 17 13:57:53 2006 UTC (12 years, 6 months ago) by bates
File length: 14851 byte(s)
Diff to previous 1380
add sparse LU and QR decompositions

Revision 1380 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Aug 15 22:31:30 2006 UTC (12 years, 6 months ago) by bates
File length: 14801 byte(s)
Diff to previous 1375
Adding dgCMatrix_{lusol,qrsol,QR} but QR still not working

Revision 1375 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Tue Aug 15 18:21:49 2006 UTC (12 years, 6 months ago) by maechler
File length: 15022 byte(s)
Diff to previous 1371
eliminate sCMatrix_to_gCMatrix now that we have (almost identical) Csparse_symmetric_to_general

Revision 1371 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Aug 14 21:08:58 2006 UTC (12 years, 6 months ago) by bates
File length: 15088 byte(s)
Diff to previous 1369
Utilities Csparse_to_logical and Csparse_symmetric_to_general

Revision 1369 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Aug 14 18:54:04 2006 UTC (12 years, 6 months ago) by bates
File length: 14939 byte(s)
Diff to previous 1366
Use CHOLMOD code for general methods at CsparseMatrix, TsparseMatrix, denseMatrix or matrix level when possible

Revision 1366 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Aug 12 17:31:39 2006 UTC (12 years, 6 months ago) by bates
File length: 14885 byte(s)
Diff to previous 1330
Generalize conversions

Revision 1330 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Fri Jul 21 08:28:18 2006 UTC (12 years, 7 months ago) by maechler
File length: 14698 byte(s)
Diff to previous 1323
pass verbose argument to (gl)mer_MCMCsamp() and use it in C code

Revision 1323 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Jul 17 18:34:45 2006 UTC (12 years, 7 months ago) by bates
File length: 14698 byte(s)
Diff to previous 1314
Add coersion from CHMfactor to sparseMatrix

Revision 1314 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Jul 10 15:23:48 2006 UTC (12 years, 7 months ago) by maechler
File length: 14611 byte(s)
Diff to previous 1309
add lgCMatrix_diag()

Revision 1309 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Jul 6 15:25:55 2006 UTC (12 years, 7 months ago) by bates
File length: 14558 byte(s)
Diff to previous 1296
mcmcsamp for glmer objects

Revision 1296 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Jun 10 18:06:33 2006 UTC (12 years, 8 months ago) by bates
File length: 14563 byte(s)
Diff to previous 1283
Re-aligned deviance column in mcmcsamp output (and no longer use index of -1); added calculations of mer_hat_trace

Revision 1283 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat May 27 19:51:01 2006 UTC (12 years, 8 months ago) by bates
File length: 14507 byte(s)
Diff to previous 1272
Add isNested and for an identity permutation for nested grouping factors

Revision 1272 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat May 20 11:34:18 2006 UTC (12 years, 9 months ago) by bates
File length: 14457 byte(s)
Diff to previous 1271
Initial denom_df attempt

Revision 1271 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu May 18 06:47:09 2006 UTC (12 years, 9 months ago) by maechler
File length: 14407 byte(s)
Diff to previous 1265
some  "sparse <-> graph"  updates

Revision 1265 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon May 15 22:36:59 2006 UTC (12 years, 9 months ago) by bates
File length: 14359 byte(s)
Diff to previous 1261
Generics lowerTriMatrix and upperTriMatrix and C function Csparse_band

Revision 1261 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sun Apr 30 15:39:44 2006 UTC (12 years, 9 months ago) by bates
File length: 14309 byte(s)
Diff to previous 1251
Add chol method for pedigree objects

Revision 1251 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Apr 15 13:08:26 2006 UTC (12 years, 10 months ago) by bates
File length: 14167 byte(s)
Diff to previous 1248
Add CSparse-based solve methods for dtCMatrix class

Revision 1248 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Apr 13 22:05:22 2006 UTC (12 years, 10 months ago) by bates
File length: 14097 byte(s)
Diff to previous 1243
C code for inverse of sparse, unit, lower triangular matrices (pattern only at present)

Revision 1243 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sun Apr 9 00:02:26 2006 UTC (12 years, 10 months ago) by bates
File length: 14041 byte(s)
Diff to previous 1218
Added qqmath method for ranef.lmer and postVar for ranef methods

Revision 1218 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Feb 20 22:47:20 2006 UTC (13 years ago) by bates
File length: 13993 byte(s)
Diff to previous 1209
Used cholmod_vertcat and cholmod_horzcat for cbind2 and rbind2 in the dsparseMatrix virtual class

Revision 1209 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Jan 25 23:42:57 2006 UTC (13 years ago) by bates
File length: 13881 byte(s)
Diff to previous 1208
Use coersion for transpose of dtCMatrix class

Revision 1208 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Wed Jan 25 15:19:29 2006 UTC (13 years ago) by bates
File length: 13875 byte(s)
Diff to previous 1200
Move dtTMatrix_to_dtCMatrix to CHOLMOD code

Revision 1200 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Mon Jan 23 16:01:20 2006 UTC (13 years ago) by maechler
File length: 13875 byte(s)
Diff to previous 1167
make*_(triangular|symmetric) : now for ldense* as well

Revision 1167 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sun Jan 15 21:13:54 2006 UTC (13 years, 1 month ago) by bates
File length: 13735 byte(s)
Diff to previous 1164
Removing rcond slot from Matrix objects

Revision 1164 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sat Jan 14 23:40:42 2006 UTC (13 years, 1 month ago) by maechler
File length: 13775 byte(s)
Diff to previous 1162
new dMatrix_validate and dense_nonpacked_validate

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Modified Fri Jan 13 23:47:38 2006 UTC (13 years, 1 month ago) by bates
File length: 13643 byte(s)
Diff to previous 1156
Move glmer reweighting to internal_update_ZXy; rearrange the deck chairs

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Modified Thu Jan 12 23:39:56 2006 UTC (13 years, 1 month ago) by bates
File length: 13667 byte(s)
Diff to previous 1143
Remove redundant registration of dspMatrix_trf; incorporate wts and wrkres slots in mer class

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Modified Thu Jan 12 03:17:24 2006 UTC (13 years, 1 month ago) by bates
File length: 13641 byte(s)
Diff to previous 1098
Switch to supernodal Cholesky representation of mer objects

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Modified Thu Dec 29 11:38:59 2005 UTC (13 years, 1 month ago) by maechler
File length: 14084 byte(s)
Diff to previous 1067
some 2-argument-tcrossprod methods (and test svn)

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Modified Mon Nov 28 16:27:29 2005 UTC (13 years, 2 months ago) by bates
File length: 14084 byte(s)
Diff to previous 1059
Added crossprod method for Csparse and dense

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Modified Wed Nov 23 22:20:13 2005 UTC (13 years, 2 months ago) by bates
File length: 14012 byte(s)
Diff to previous 983
Matrix multiplication and coersion at higher level

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Modified Tue Oct 11 15:19:20 2005 UTC (13 years, 4 months ago) by bates
File length: 13954 byte(s)
Diff to previous 978
Remove references to Pattern.[ch]

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Modified Mon Oct 10 13:54:09 2005 UTC (13 years, 4 months ago) by bates
File length: 13975 byte(s)
Diff to previous 977
More mer2 modifications

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Modified Fri Oct 7 22:14:47 2005 UTC (13 years, 4 months ago) by bates
File length: 13775 byte(s)
Diff to previous 967
mer2_initial

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Modified Thu Oct 6 03:07:23 2005 UTC (13 years, 4 months ago) by bates
File length: 13725 byte(s)
Diff to previous 963
More updates on lmer - still not quite correct

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Modified Mon Oct 3 01:44:56 2005 UTC (13 years, 4 months ago) by bates
File length: 13533 byte(s)
Diff to previous 956
Modifications to mer2

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Modified Fri Sep 30 17:28:00 2005 UTC (13 years, 4 months ago) by maechler
File length: 13533 byte(s)
Diff to previous 945
more coercions; particularly "d" <-> "l"; more tests (and more FIXMEs!); fixing two "index-0 bugs"; ...

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Modified Wed Sep 28 08:54:28 2005 UTC (13 years, 4 months ago) by maechler
File length: 13475 byte(s)
Diff to previous 940
+ logical dense matrices; more coercions

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Modified Tue Sep 27 00:50:35 2005 UTC (13 years, 4 months ago) by bates
File length: 13036 byte(s)
Diff to previous 928
Temporary function mer2 to experiment with CHOLMOD-based mixed-effects

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Modified Mon Sep 19 21:10:59 2005 UTC (13 years, 5 months ago) by bates
File length: 13036 byte(s)
Diff to previous 923
crossprod and tcrossprod for Tsparse

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Modified Sun Sep 18 23:41:45 2005 UTC (13 years, 5 months ago) by bates
File length: 13036 byte(s)
Diff to previous 922
More progress on incorporating CHOLMOD - still not passing CMD check

Revision 922 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Sun Sep 18 16:33:54 2005 UTC (13 years, 5 months ago) by bates
File length: 12916 byte(s)
Diff to previous 919
Added CHOLMOD-based C functions.  Still need methods defined in R and some error checking

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Modified Fri Sep 16 17:27:06 2005 UTC (13 years, 5 months ago) by maechler
File length: 12378 byte(s)
Diff to previous 912
new compressed_non_0_ij()

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Modified Thu Sep 15 14:53:55 2005 UTC (13 years, 5 months ago) by bates
File length: 12309 byte(s)
Diff to previous 901
Adding CHOLMOD and related source packages

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Modified Tue Sep 6 01:26:11 2005 UTC (13 years, 5 months ago) by bates
File length: 12134 byte(s)
Diff to previous 890
Add "start" argument to lmer

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Modified Thu Sep 1 17:18:08 2005 UTC (13 years, 5 months ago) by maechler
File length: 12076 byte(s)
Diff to previous 888
add triangularMatrix_validate and symmetric* to C code and make (re!)use of it - not quite everywhere?

Revision 888 - (view) (download) (as text) (annotate) - [select for diffs]
Modified Thu Sep 1 13:46:21 2005 UTC (13 years, 5 months ago) by bates
File length: 11926 byte(s)
Diff to previous 879
New simulate method for lmer objects

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Modified Tue Aug 30 14:35:05 2005 UTC (13 years, 5 months ago) by bates
File length: 11874 byte(s)
Diff to previous 874
Added simulate generic and method

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Modified Sat Aug 27 21:27:51 2005 UTC (13 years, 5 months ago) by maechler
File length: 11980 byte(s)
Diff to previous 866
prepare graphNEL coercion both for directed and undir.

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Modified Fri Aug 19 16:58:26 2005 UTC (13 years, 6 months ago) by maechler
File length: 11980 byte(s)
Diff to previous 862
new lcrc_to_matrix code

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Modified Thu Aug 18 21:31:07 2005 UTC (13 years, 6 months ago) by bates
File length: 11927 byte(s)
Diff to previous 852
Coercion method for graphNEL to sparseMatrix class

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Modified Tue Aug 16 17:52:16 2005 UTC (13 years, 6 months ago) by bates
File length: 11859 byte(s)
Diff to previous 835
Move readHB and readMM to R code and allow the use of connections

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Modified Mon Aug 8 13:33:18 2005 UTC (13 years, 6 months ago) by bates
File length: 11847 byte(s)
Diff to previous 825
Add writeHB and writeMM methods and generic

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Modified Sun Aug 7 15:22:33 2005 UTC (13 years, 6 months ago) by bates
File length: 11697 byte(s)
Diff to previous 824
Harwell-Boeing and MatrixMarket formats

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Modified Sat Aug 6 20:01:51 2005 UTC (13 years, 6 months ago) by bates
File length: 11533 byte(s)
Diff to previous 815
Allow mcmcsamp on transformed parameters

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Modified Sun Jul 24 23:53:40 2005 UTC (13 years, 6 months ago) by bates
File length: 11479 byte(s)
Diff to previous 813
Added lmer_MCMCsamp to the C sources

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Modified Thu Jul 21 16:41:42 2005 UTC (13 years, 7 months ago) by bates
File length: 11427 byte(s)
Diff to previous 812
New sampling for glmerMCMC but intermediates are not appropriately PROTECTed

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Modified Thu Jul 21 14:59:04 2005 UTC (13 years, 7 months ago) by bates
File length: 11373 byte(s)
Diff to previous 804
Added an rWishart function, which should later be moved to the stats package

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Modified Thu Jul 7 20:05:47 2005 UTC (13 years, 7 months ago) by bates
File length: 11317 byte(s)
Diff to previous 783
Preparing for glmmMCMC

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Modified Sun Jun 26 03:41:37 2005 UTC (13 years, 7 months ago) by bates
File length: 11301 byte(s)
Diff to previous 782
Reinstate check on number of arguments

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Modified Fri Jun 24 23:06:33 2005 UTC (13 years, 7 months ago) by bates
File length: 11312 byte(s)
Diff to previous 781
Adding MCMC capability (currently incomplete)

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Modified Fri Jun 24 15:38:43 2005 UTC (13 years, 7 months ago) by bates
File length: 11300 byte(s)
Diff to previous 776
Further development on AGQ and MCMC for glmm models

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Modified Mon Jun 13 19:45:04 2005 UTC (13 years, 8 months ago) by bates
File length: 11192 byte(s)
Diff to previous 775
Setting up for AGQ

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Modified Mon Jun 13 01:22:28 2005 UTC (13 years, 8 months ago) by bates
File length: 11146 byte(s)
Diff to previous 774
Factoring C code in preparation for AGQ

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Modified Fri Jun 10 18:40:54 2005 UTC (13 years, 8 months ago) by bates
File length: 11536 byte(s)
Diff to previous 766
Moving devLaplace calculations to C code

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Modified Tue Jun 7 23:03:34 2005 UTC (13 years, 8 months ago) by bates
File length: 11542 byte(s)
Diff to previous 761
Isolating and cleaning up the mer, lmer, and glmer functions

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Modified Mon Jun 6 15:51:24 2005 UTC (13 years, 8 months ago) by bates
File length: 11534 byte(s)
Diff to previous 749
Use mer objects; Replace REML slot by method slot

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Modified Fri May 20 03:17:14 2005 UTC (13 years, 9 months ago) by bates
File length: 11553 byte(s)
Diff to previous 739
Release 0.95-10

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Modified Tue May 17 17:42:04 2005 UTC (13 years, 9 months ago) by bates
File length: 13003 byte(s)
Diff to previous 723
Adding logical sparse matrix methods

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Modified Tue May 10 01:42:05 2005 UTC (13 years, 9 months ago) by bates
File length: 12220 byte(s)
Diff to previous 718
More logical sparse matrix methods

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Modified Mon May 9 01:24:35 2005 UTC (13 years, 9 months ago) by bates
File length: 12156 byte(s)
Diff to previous 714
Getting ready for a release

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Modified Fri May 6 23:52:34 2005 UTC (13 years, 9 months ago) by bates
File length: 12030 byte(s)
Diff to previous 709
Added colSums and friends for dgeMatrix class

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Modified Tue May 3 16:08:26 2005 UTC (13 years, 9 months ago) by deepayan
File length: 11970 byte(s)
Diff to previous 705
changes related to Laplace approximation, including new function to compute parts of the deviance in C code, which doesn't currently work

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Modified Fri Apr 29 14:42:39 2005 UTC (13 years, 9 months ago) by deepayan
File length: 11656 byte(s)
Diff to previous 692
additions related to the Laplace approximation in glmm lmer models

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Modified Mon Apr 18 14:34:33 2005 UTC (13 years, 10 months ago) by bates
File length: 11502 byte(s)
Diff to previous 686
Release 0.95-6

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Modified Thu Mar 31 21:19:35 2005 UTC (13 years, 10 months ago) by bates
File length: 11329 byte(s)
Diff to previous 683
Create "fallback" methods for any kind of numeric, dense matrix

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Modified Thu Mar 31 17:10:16 2005 UTC (13 years, 10 months ago) by bates
File length: 11329 byte(s)
Diff to previous 677
Moving methods for operations with numeric to the Matrix class and with integer to the dMatrix class

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Modified Mon Mar 28 14:03:32 2005 UTC (13 years, 10 months ago) by bates
File length: 11329 byte(s)
Diff to previous 675
Added dgRMatrix methods and documentation

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Modified Sat Mar 26 11:16:05 2005 UTC (13 years, 10 months ago) by maechler
File length: 11315 byte(s)
Diff to previous 654
export csc_tcrossprod - and add examples & test for tcrossprod()

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Modified Wed Mar 16 16:18:33 2005 UTC (13 years, 11 months ago) by bates
File length: 11261 byte(s)
Diff to previous 652
Generalize matrix multiplication and solve methods

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Modified Wed Mar 16 01:08:36 2005 UTC (13 years, 11 months ago) by bates
File length: 11341 byte(s)
Diff to previous 637
Updates to multiplication and other methods

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Modified Tue Mar 15 00:41:24 2005 UTC (13 years, 11 months ago) by bates
File length: 11502 byte(s)
Diff to previous 631
Coercions and methods for dppMatrix and dspMatrix classes

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Modified Sun Mar 13 04:34:52 2005 UTC (13 years, 11 months ago) by bates
File length: 10174 byte(s)
Diff to previous 628
Add BunchKaufman factorization

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Modified Thu Mar 10 17:57:47 2005 UTC (13 years, 11 months ago) by maechler
File length: 10054 byte(s)
Diff to previous 622
more  %*% methods; some dimnames in C (untested); checks extended

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Modified Mon Mar 7 12:45:59 2005 UTC (13 years, 11 months ago) by bates
File length: 9984 byte(s)
Diff to previous 613
Wrong number of args in lmer_update_mm

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Modified Sat Mar 5 21:13:40 2005 UTC (13 years, 11 months ago) by maechler
File length: 9936 byte(s)
Diff to previous 603
+ Matrix_DimnamesSym

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Modified Fri Mar 4 12:53:01 2005 UTC (13 years, 11 months ago) by bates
File length: 9890 byte(s)
Diff to previous 597
Define %*% method for dtpMatrix and matrix properly

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Modified Thu Mar 3 19:58:59 2005 UTC (13 years, 11 months ago) by bates
File length: 9756 byte(s)
Diff to previous 591
Methods and coercions for the dtpMatrix class

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Modified Thu Mar 3 05:16:09 2005 UTC (13 years, 11 months ago) by bates
File length: 9696 byte(s)
Diff to previous 587
C functions for dtpMatrix class

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Modified Wed Mar 2 18:19:15 2005 UTC (13 years, 11 months ago) by bates
File length: 9235 byte(s)
Diff to previous 582
dsTMatrix_as_dsCMatrix

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Modified Mon Feb 28 18:15:21 2005 UTC (13 years, 11 months ago) by bates
File length: 9165 byte(s)
Diff to previous 557
Internationalization and localization

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Modified Thu Feb 17 01:18:02 2005 UTC (14 years ago) by bates
File length: 9181 byte(s)
Diff to previous 546
Coercions and methods for the dsTMatrix class

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Modified Tue Feb 15 22:09:12 2005 UTC (14 years ago) by bates
File length: 9026 byte(s)
Diff to previous 543
Methods and coercions for the dtTMatrix class

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Modified Sat Feb 12 13:37:46 2005 UTC (14 years ago) by bates
File length: 8871 byte(s)
Diff to previous 536
Changes for non-nested vector-valued random effects

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Modified Thu Feb 10 08:15:12 2005 UTC (14 years ago) by bates
File length: 8821 byte(s)
Diff to previous 495
rearranging utility functions in the C code

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Modified Thu Feb 3 18:48:31 2005 UTC (14 years ago) by bates
File length: 8721 byte(s)
Diff to previous 488
Initial implementation of the Schur generic

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Modified Wed Feb 2 19:11:51 2005 UTC (14 years ago) by bates
File length: 8667 byte(s)
Diff to previous 485
renaming and rearranging classes

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Modified Wed Feb 2 17:20:55 2005 UTC (14 years ago) by bates
File length: 8521 byte(s)
Diff to previous 478
renaming and rearranging classes

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Modified Wed Feb 2 14:33:51 2005 UTC (14 years ago) by bates
File length: 8493 byte(s)
Diff to previous 476
Renaming and reorganizing classes

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Modified Wed Feb 2 11:51:24 2005 UTC (14 years ago) by bates
File length: 8365 byte(s)
Diff to previous 461
Change name of slot from factorization to factors

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Modified Sat Jan 29 14:09:38 2005 UTC (14 years ago) by bates
File length: 8375 byte(s)
Diff to previous 451
Add expm function

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Modified Sun Jan 23 10:05:53 2005 UTC (14 years ago) by bates
File length: 8273 byte(s)
Diff to previous 422
New coercion method for cscBlocked objects

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Modified Tue Jan 4 23:45:15 2005 UTC (14 years, 1 month ago) by bates
File length: 8205 byte(s)
Diff to previous 417
Check in prior to leaving for Zuerich

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Modified Mon Jan 3 19:14:22 2005 UTC (14 years, 1 month ago) by bates
File length: 8151 byte(s)
Diff to previous 415
Change to the lmer representation

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Modified Mon Jan 3 19:05:11 2005 UTC (14 years, 1 month ago) by bates
File length: 8153 byte(s)
Diff to previous 410
Change to the lmer representation

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Modified Tue Dec 28 14:51:42 2004 UTC (14 years, 1 month ago) by bates
File length: 8461 byte(s)
Diff to previous 397
Working on the lmer classes

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Modified Thu Dec 16 19:15:32 2004 UTC (14 years, 2 months ago) by bates
File length: 8213 byte(s)
Diff to previous 390
Add arguments to ssclme_to_lme

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Modified Tue Dec 14 19:58:55 2004 UTC (14 years, 2 months ago) by bates
File length: 8212 byte(s)
Diff to previous 329
Add a coercion for tripletMatrix to matrix

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Modified Fri Nov 12 21:01:19 2004 UTC (14 years, 3 months ago) by bates
File length: 8152 byte(s)
Diff to previous 305
Keep symbols and filenames consistent

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Modified Wed Oct 27 21:36:19 2004 UTC (14 years, 3 months ago) by bates
File length: 8665 byte(s)
Diff to previous 298
updates and downdates

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Modified Fri Oct 8 13:47:20 2004 UTC (14 years, 4 months ago) by bates
File length: 8607 byte(s)
Diff to previous 297
added validate functions

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Added Mon Oct 4 17:13:42 2004 UTC (14 years, 4 months ago) by bates
File length: 8519 byte(s)
Add registration of .Call functions

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