Commit 74780fbc authored by Roman Flury's avatar Roman Flury

rm slipped in files

parent 335fa2fc
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spam/.Rproj.user
spam/docs/
spam/revdep/
spam/.Renviron
spam/.Rprofile
.Rhistory
.RData
.DS_Store
......
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R_LIBS=../lib
## Environmental variables to simulate R-devel CRAN errors
R_KEEP_PKG_SOURCE=yes
_R_S3_METHOD_LOOKUP_BASEENV_AFTER_GLOBALENV_=true
_R_S3_METHOD_LOOKUP_USE_TOPENV_AS_DEFENV_=true
# .Rprofile for spam-devel #
cat("--------------------------------------------------------------------------------\n")
cat("spam-devel startup\n\n")
cat(" - run a \"make dependencies\", if pkgs are not available\n")
cat(" note: the libPaths are set in .Renviron to:\n")
.libPaths()
cat("\n\n")
cat("some R options set:\n")
local({
r <- getOption("repos")
r["CRAN"] <- "https://stat.ethz.ch/CRAN/"
options(repos = r)
})
cat(" - CRAN mirror is set to: https://stat.ethz.ch/CRAN/\n")
options(scipen = 10)
cat(" - R is forced to express very small or large numbers w/o abreviation\n")
utils::rc.settings(ipck = TRUE)
cat(" - tab-complete enabled for package names in \"library()\" or \"require()\" calls.\n")
cat(" - additional environment variables are defined in .Renviron to mimick CRAN as close as possible\n")
cat("--------------------------------------------------------------------------------\n\n")
commit 635cd066b9ba322b258cc44a2faede3cca1ef80b
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Sun Jul 2 21:22:06 2017 +0200
ready for 2.1-1
commit b80e813e8c39f65bfa00439f26fcb529bfa9ae8d
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Sun Jul 2 21:20:21 2017 +0200
add all Fortran authors
commit 86764d592c51c60633ce244566eb63f5fab35cd9
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Fri Jun 30 18:23:25 2017 +0200
ready for push to CRAN
commit b2cca2f08887298349cd372d41c742840e1fd760
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Thu Jun 29 16:31:00 2017 +0200
ready for last revdepcheck
commit ffb11a84bfb259da919f43661e6438a0184c7335
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Thu Jun 29 13:24:22 2017 +0200
force64 and spamlist
commit 9fe27f43165ea1379c9c7c9991860672f4b044dc
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Wed Jun 28 17:24:39 2017 +0200
ChangeLog
commit a058f606a4bdd403e9b643d2d93f42efbcf8216f
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Wed Jun 28 09:08:18 2017 +0200
Final push for release 2.1-0
commit 389fca705fb5b92ac179dc76e6dc8c2bb5021cd0
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Tue Jun 20 06:26:48 2017 +0200
Rd headers:
commit c955c9a9c5c97e84a585a5292142edc768e79303
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Mon Jun 19 20:08:38 2017 +0200
minor stuff
commit 6f4c72ffb79cd7a68e8a866c4623990b5fe71ff8
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Mon Jun 19 16:17:08 2017 +0200
Header R files
commit eabd1c363fc24b02c538f88f651df4c8111d4707
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Mon Jun 19 08:45:24 2017 +0200
R's contribution
commit 487277c8b5cc0b96b981c9fd8ed2fe226579daa9
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Wed Jun 7 15:08:19 2017 +0200
getting closer... one nasty one remaining
commit c12c2cafd0a4a21e842dc81f27137d6149360dec
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Wed Jun 7 10:50:02 2017 +0200
runs almost
commit c35765f8115df8c1c73d2834d0ec54a1394885ca
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Tue Jun 6 20:32:38 2017 +0200
more about init
commit a1b728d68bbe379a09391ccc7d58e141ed09b1d8
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Tue Jun 6 16:04:08 2017 +0200
init.c step by step
commit 642ccab77e8cedc27b8ca5ef818d55a110cd53f4
Merge: bd49f66 95152b9
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Tue Jun 6 14:35:34 2017 +0200
Merge branch 'migrate' of git.math.uzh.ch:reinhard.furrer/spam-devel into migrate
?
commit 95152b998b1dc0acd14d132409fda34b35cf5fb9
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Tue Jun 6 14:34:44 2017 +0200
stab at init.c
commit bd49f6684eb857b49970fc4f41a72d3bfbffd4ef
Merge: f3c6d76 596a660
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Tue Jun 6 11:20:31 2017 +0200
Merge branch 'migrate' of git.math.uzh.ch:reinhard.furrer/spam-devel into migrate
?
commit f3c6d7626742e7caddbfb295863de13309f7c19b
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Tue Jun 6 11:20:22 2017 +0200
typo
commit 596a660c278bbf23fc9ac920d7f955dd69182fe3
Author: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Date: Tue Jun 6 08:58:42 2017 +0200
new weblink for sparsekit
commit af7b37106a791b85bc2655e402d369092ec3af93
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Mon May 8 12:12:05 2017 +0200
Fixed diag.Rd manual file to fit new R distribution.
commit 6cb1f2ee9cca2b629e30fa11e1584d422d39be5f
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Mon May 8 11:20:47 2017 +0200
Improved 1st line of header and header content is now adapted by changing spam-devel/headerR only.
commit 8ebddff3ad55584e5f014e4b025d7c2f6f944ea1
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu May 4 14:58:25 2017 +0200
Added generic way of inserting headers: make headers. To be improved.
commit b3af9e290e95494aa8b7b9e1ba445487cb0620d1
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue May 2 15:18:11 2017 +0200
Changed Title to fit title case criterion.
commit 65680f7d9e6d5b1e18b31f3017104066f1328490
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue May 2 14:31:59 2017 +0200
Commented print in spam_solve.R -> make check: 3Notes 1Warning.
commit dcd1872d940c49a757f48027e3d7f1870a614e01
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue May 2 14:31:05 2017 +0200
Version ..-6 instead of .. -06 and added Daniel Gerber as contributor in DESCRIPTION.
commit 189906463e203c95296f6d406ce4e1ce37c99309
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue May 2 14:04:44 2017 +0200
...
commit ec194faeea6adedada1cb1cb83f31c78ea5b88f5
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Apr 20 12:25:17 2017 +0200
packed chol.spam in test format.
commit 631a43ba4f1c876bcfba15d3c0f896140ee76250
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Apr 20 12:17:24 2017 +0200
...
commit e62f0aebfc6368ab29b9fa772751cf205c79add6
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Apr 20 11:50:56 2017 +0200
Improved INTENT of chol.spam.
commit ce6f8609cfbb0fa433828e4526045b110687d433
Author: Florian Gerber <florian.gerber@math.uzh.ch>
Date: Fri Apr 14 20:19:56 2017 +0200
typo
commit b94f72c056b4e735d836657495d54f3d0e099bcd
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue Apr 11 15:25:34 2017 +0200
Completet Migrationlog.
commit 742985b6953e3cd55218092668924e4907cadfd2
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue Apr 11 14:37:30 2017 +0200
Test for dist.R.
commit fd0de40425fed51c92983a549b2920a54816a902
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue Apr 11 14:37:06 2017 +0200
Added intent to dist.R. for geodist works only up to 1e-5..
commit 457b3aba7a071b0958221f6ee71dcf6a16e12963
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue Apr 11 11:57:03 2017 +0200
...
commit 3d5f5b06d7612de9c8f42d2edeee6e7adc0fdf23
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue Apr 11 11:46:54 2017 +0200
Added some getOption("spam.force64").
commit a61e82a0ff358c8371dfd4ce8044d461e76a5475
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue Apr 11 11:45:41 2017 +0200
Added all force64 tests of functions in definitions.R to test-definitions.R
commit 76fc1d5a1b55cd1b725b8926de97cecb3735f581
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue Apr 11 10:07:14 2017 +0200
Update MigrationLog.csv. Add intent. Put as.matrix.spam test into test-definitions. Added other tests.
commit 85038401ae642a9364ac14a6209dd252cb33aa97
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Tue Apr 11 09:10:06 2017 +0200
Added test for as.spam.spam.
commit 701f709fe00a1a63590ab763af772d5a7e789afc
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Mon Apr 10 13:11:36 2017 +0200
Removed dummy error in xybind.R
commit 8d30855808f0c3dd61249ec8b9ded2d8e163a12b
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Mon Apr 10 13:10:57 2017 +0200
Added tests for diag.of.spam and diag<-.spam
commit ecf2a3ae1a731142d8b79f6f6af4f461bb8f2d78
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Mon Apr 10 13:10:04 2017 +0200
Comand 'make TARGET=filename' available, i.e. 'make TARGET=dim'.
commit 9b1c8666cfcc4277fb2b04706e08f9acc995570c
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Fri Mar 31 12:54:45 2017 +0200
all functions migration log.
commit 94efb2e49861a7865ec5cf82b319ec3fa6bd14b4
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Fri Mar 31 12:44:30 2017 +0200
more comments.
commit a55ff71d273c199257f26cc49e39d177cd9cc8f2
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Fri Mar 31 12:43:06 2017 +0200
Cleaned comments and added force64 option.
commit 1422ebd56ed8ba7c42e967fa73d85c409af2d0c3
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Fri Mar 31 12:39:30 2017 +0200
updated migration log.
commit 9b78e29a5c964bd4a19af27696739b178d53b50e
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Mar 19 20:21:01 2017 +0100
Melded modernized arithmetic Fortran from branch daniel into migrate. make check ok.
commit 8b24e9f0c439955fe5a5536294bb2418af6a285c
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Mar 19 19:47:48 2017 +0100
Cleanup
commit c13a7c6e0afe7ac85474dace54e9036a51e114b7
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Mar 19 19:19:20 2017 +0100
Fixed make check error.
commit 3f73b86dbd73a4d8b6b64878fdf4d11fe3cace22
Merge: d74d590 a786e08
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Mar 19 14:41:02 2017 +0100
More merge
commit d74d590300d5653035ef522c1328fe072fc6b979
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Mar 19 14:39:40 2017 +0100
Preparation merge.
commit 25d5a7d8ae2b721276e2e2acfcbabb5fc035f830
Merge: 6755ba4 f71cf86
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Mar 19 13:54:10 2017 +0100
More merge.
commit 6755ba4c2154c67f5c4c77b426ca21191aedf7b1
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Mar 19 13:42:24 2017 +0100
Merge preparation.
commit a786e0829536f9ff951ef0facf88eb32d33318d8
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Mar 19 11:38:09 2017 +0100
Scratch
commit f71cf86f66dfa33f3cba764c644b246dc55afba7
Author: Florian Gerber <florian.gerber@math.uzh.ch>
Date: Tue Mar 7 11:07:44 2017 +0100
minor ..
commit 7c507ae9fb0261a3df3ffadc80ec7a7d4c40de4f
Author: Florian Gerber <florian.gerber@math.uzh.ch>
Date: Tue Mar 7 10:54:07 2017 +0100
makefile in migrate_tests/
commit 0fbd78fc426cc8f905799d52b2a061ac94da678c
Author: Florian Gerber <florian.gerber@math.uzh.ch>
Date: Tue Mar 7 10:38:36 2017 +0100
improved makefile
commit fd03e1cd5c5b808d6760889efbd65dbc8bd326e3
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Mon Mar 6 17:34:43 2017 +0100
Update MigrationLog.csv until definitions.R .spam.mat.mul...
commit 4e145a842991bee86d7ed29824bcbb61aad90fd5
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Mon Mar 6 16:36:41 2017 +0100
Cleanup Todo + list Migrationlog of spam_solve.R
commit 72750ca7c05cb9fe8b6f17d84dc0be0ab214b38d
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Mon Mar 6 15:47:11 2017 +0100
Test MigrationLog.csv.
commit 1850a2dd682ee245246ba257024655e7d0e11b75
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Mon Mar 6 15:45:32 2017 +0100
Test MigrationLog.ods
commit fd83527271c35e75d73a075b33e9bf203ebb19e2
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Mon Mar 6 14:37:39 2017 +0100
Chol2inv migrated and test added to test-spam_solve.R.
commit 121ec1365a4043b16ec8e1c1d5bfbc91d32aeca9
Author: Florian Gerber <florian.gerber@math.uzh.ch>
Date: Mon Mar 6 14:00:25 2017 +0100
S4 method spam of function spam is now set to function as.spam. This solves the problem in migrate_tests/test-spamlist.R
commit ba6c89ded9cdc73ba8040aee30a211930cdbb9aa
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Mon Jan 16 15:58:17 2017 +0100
Fixed spelling mistake in context.
commit c2521a21b627b5324929b7c089c35c8ebb0cbdf1
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Jan 15 18:18:39 2017 +0100
Added some force64 options, where they were forgotten.
commit 3af3de6ba4c706aff8d6fa04371e24eae76b7bb6
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Jan 15 18:00:46 2017 +0100
Somehow bug is gone.. Check OK.
commit a12054e96a7602c027f7c3e5b25bfa10144656a5
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Jan 15 17:04:53 2017 +0100
Unmigrated as.matrix(chol). Make check OK.
commit 46b9d77b8dd58068d0c78e121c70a6d689ccfb98
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Jan 15 16:39:23 2017 +0100
Migrated as.matrix(chol). Make check fails..
commit d99305d17831b903e271a91f29d87d435a55d8e7
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Jan 15 15:24:45 2017 +0100
Error detected in chol2inv: chol2inv(css) !=chol2inv(ctt). This on purpose?
commit a18ba86cc18ecd3471f3d96c28061fc62461a84c
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Sun Jan 15 15:22:38 2017 +0100
Migration of solve.spam.
commit 38eb3e5c57708f7ab34b3887faaa2473045fcc87
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Fri Jan 13 14:33:49 2017 +0100
Migrated update.spam.chol.Ng... to .C64.
commit 8c6f80a5ff0639fc8f7db33cbb7960ec16134c1e
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Fri Jan 13 13:49:38 2017 +0100
Migrated c method for NgPeyton object. Fixed recusive bug.
commit 3187e6f1a2e0f13d56a938e153190ab964cc4b05
Merge: 1dcc050 68bcdc1
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Fri Jan 13 12:28:51 2017 +0100
Merge branch 'toeplitz' into 'migrate'
Toeplitz
Toepliz.R migrated to .C64.
Specifically, toeplitz.spam and circulant.spam are now .C64 compatible.
Not tested for 64bit.
Check ok.
See merge request !21
commit 68bcdc180bd12ba4ec831188590fae18ab187b64
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Fri Jan 13 12:21:56 2017 +0100
Migration circulant.spam complete. Check OK.
commit 203b38e9c29dbdb35b107ee705f269cf95131a56
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Fri Jan 13 11:35:07 2017 +0100
Migration toeplitz complete. Check Ok.
commit 0acb09248524cc78bd44cc9b2f3890a9307afa55
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 22:40:19 2017 +0100
Almost complete test.
commit d3bd848ce4aed7ac013a3763976bfd8f6b818447
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 22:31:16 2017 +0100
Migration toepliz.R (actually toeplitz!! with tz). Check OK.
commit 1dcc050df477efc33aac9a47fc9e187c788c2c57
Merge: 7fc1834 59ae4b6
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 21:54:23 2017 +0100
Merge branch 'definitions' into 'migrate'
Definitions
Migrated remaing functions in definitions.R to .C64.
In particular, assign.spam, all.equal and subassignment.
Tests not yet for 64bit.
Check ok.
See merge request !20
commit 59ae4b6003408ffe9f93eb1335d222d0123d869a
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 21:51:30 2017 +0100
Migration of all.equal completed.
commit 5a09c63895a21ee7085f0b2054de7a84428ff4e4
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 19:11:46 2017 +0100
Test-definitions.R extended to include assign.spam.
commit b1b5b4962023e33e0b728b0db748a5c665632632
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 18:42:32 2017 +0100
Assign.spam migration complete.Check OK.
commit efef16ba32ddc34cf39aea9bf8d50b5e7dd475e8
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 17:17:09 2017 +0100
First half of assign.spam migrated. Check OK.
commit 2368d833c080da515280e30157012098ed45a66e
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 15:32:43 2017 +0100
First test in test-definitions.R under subass.
commit 95ec7601e787231d85423eff6f4730a915239119
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 15:06:58 2017 +0100
.newSpam added. Check OK.
commit 4be56abf54e0251e5ee37c43b984f2c3db9979a7
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 14:55:54 2017 +0100
Introduced INTENT argument to subass.
commit f49ae3c2e03c2d290058e924742174ab653500a9
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 14:47:45 2017 +0100
First successful migration subass. Check OK.
commit 3d9d785cce66efb107abc46947ec0fe129ab7598
Author: Daniel Gerber <daniel_gerber_2222@hotmail.com>
Date: Thu Jan 12 14:26:05 2017 +0100