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commit 3506101 Author: Francisco Bischoff <[email protected]> Date: Thu Aug 18 17:17:38 2022 +0100 allfixed commit 4700800 Author: Francisco Bischoff <[email protected]> Date: Thu Aug 18 14:02:50 2022 +0100 siteok commit 843e1e1 Author: Francisco Bischoff <[email protected]> Date: Thu Aug 18 12:32:37 2022 +0100 recoding commit 8b9fb0c Author: Francisco Bischoff <[email protected]> Date: Mon Aug 8 09:56:24 2022 +0100 checklist
matrix-profile-foundation · Aug 18, 2022 · 24c9ff2 · 24c9ff2
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diff --git a/.Rbuildignore b/.Rbuildignore
@@ -1,16 +1,22 @@
+^renv$
+^renv\.lock$
+^\.history$
+^\.vscode$
+^\.editorconfig$
+^.*\.code-workspace$
 ^.*\.Rout$
 ^.*\.Rproj$
 ^.*\.yml$
-^\..*$
 ^\.Rproj\.user$
 ^cran-comments\.md$
 ^CRAN-RELEASE$
+^\..*$
 ^dev$
 ^docs$
 ^examples_.*$
+^lastMiKTeXException$
 ^LICENSE\.md$
 ^LOCAL_APPDATA_FONTCONFIG_CACHE$
-^NEWS\.md$
 ^NEWS\.Rmd$
 ^packrat$
 ^pkgdown$
@@ -25,3 +31,7 @@
 ^tsmp.*\.tgz$
 ^tsmp\.Rcheck$
 ^API$
+^doc$
+^Meta$
+^codemeta\.json$
+^CRAN-SUBMISSION$
diff --git a/.gitignore b/.gitignore
@@ -48,6 +48,12 @@ vignettes/*.R
 # End of https://www.gitignore.io/api/r
 
 # Personalized
+.Renviron
+.Rprofile
+workspace.RData
+.history
+docs
+dev
 dev/
 LOCAL_APPDATA_FONTCONFIG_CACHE/
 src-*/
@@ -64,3 +70,5 @@ Rplots.pdf
 /revdep/data.sqlite
 /revdep/*.html
 /CRAN-RELEASE
+/doc/
+/Meta/
diff --git a/.lintr b/.lintr
@@ -1,10 +1,43 @@
-linters: with_defaults(T_and_F_symbol_linter, assignment_linter, closed_curly_linter(FALSE), commas_linter,
-      commented_code_linter, cyclocomp_linter(50), object_name_linter(styles = "snake_case"), object_length_linter(30),
-      equals_na_linter, function_left_parentheses_linter, infix_spaces_linter,
-      line_length_linter = NULL, no_tab_linter, object_usage_linter, open_curly_linter(FALSE), paren_brace_linter,
-      absolute_path_linter(lax = FALSE), nonportable_path_linter(lax = FALSE), pipe_continuation_linter,
-      semicolon_terminator_linter(semicolon = "trailing"), seq_linter, single_quotes_linter,
-      spaces_inside_linter, spaces_left_parentheses_linter, trailing_blank_lines_linter,
-      trailing_whitespace_linter, undesirable_function_linter, undesirable_operator_linter,
-      unneeded_concatenation_linter
-    )
+linters: linters_with_defaults(
+  absolute_path_linter(lax = TRUE),
+  any_duplicated_linter(),
+  any_is_na_linter(),
+  backport_linter(),
+  class_equals_linter(),
+  commented_code_linter = NULL,
+  condition_message_linter(),
+  consecutive_stopifnot_linter(),
+  cyclocomp_linter(50),
+  duplicate_argument_linter(),
+  fixed_regex_linter(),
+  ifelse_censor_linter(),
+  inner_combine_linter(),
+  line_length_linter(150),
+  literal_coercion_linter(),
+  missing_argument_linter(),
+  missing_package_linter(),
+  namespace_linter(),
+  nested_ifelse_linter(),
+  nonportable_path_linter(lax = TRUE),
+  numeric_leading_zero_linter(),
+  object_length_linter(30),
+  object_usage_linter = NULL,
+  outer_negation_linter(),
+  package_hooks_linter(),
+  paste_linter(),
+  pipe_call_linter(),
+  redundant_ifelse_linter(),
+  regex_subset_linter(),
+  semicolon_linter(allow_compound = TRUE),
+  sprintf_linter(),
+  string_boundary_linter(),
+  strings_as_factors_linter(),
+  system_file_linter(),
+  undesirable_function_linter(all_undesirable_functions),
+  undesirable_operator_linter(all_undesirable_operators),
+  unneeded_concatenation_linter(),
+  unreachable_code_linter(),
+  unused_import_linter(),
+  yoda_test_linter()
+  )
+exclusions: list("dev", "tests", "renv", "R/RcppExports.R", "README.Rmd")
diff --git a/.theia/settings.json b/.theia/settings.json
diff --git a/.travis.yml b/.travis.yml
diff --git a/CRAN-SUBMISSION b/CRAN-SUBMISSION
@@ -0,0 +1,3 @@
+Version: 0.4.15
+Date: 2022-08-18 16:31:48 UTC
+SHA: df773cc75d8a7236177046e860cc02bdf03a8993
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,8 +1,8 @@
 Type: Package
 Package: tsmp
 Title: Time Series with Matrix Profile
-Version: 0.4.14.9000
-Authors@R: 
+Version: 0.4.15
+Authors@R:
     c(person(given = "Francisco",
              family = "Bischoff",
              role = c("aut", "cre"),
@@ -39,10 +39,9 @@ Description: A toolkit implementing the Matrix Profile concept
     <http://www.cs.ucr.edu/~eamonn/MatrixProfile.html>.
 License: Apache License (>= 2.0)
 URL: https://github.com/matrix-profile-foundation/tsmp
-BugReports: 
-    https://github.com/matrix-profile-foundation/tsmp/issues
-Depends: 
-    R (>= 3.5.0)
+BugReports: https://github.com/matrix-profile-foundation/tsmp/issues
+Depends:
+    R (>= 4.0)
 Imports:
     audio,
     checkmate,
@@ -63,15 +62,15 @@ Suggests:
     spelling,
     testthat (>= 2.1.0),
     vdiffr
-LinkingTo: 
+LinkingTo:
     Rcpp (>= 1.0.3),
     RcppParallel (>= 5.0.0)
-VignetteBuilder: 
+VignetteBuilder:
     knitr
 Encoding: UTF-8
 Language: en-US
 LazyData: true
 NeedsCompilation: no
 Roxygen: list(markdown = TRUE)
-RoxygenNote: 7.1.0
+RoxygenNote: 7.2.1
 SystemRequirements: GNU make
diff --git a/NAMESPACE b/NAMESPACE
@@ -6,18 +6,23 @@ S3method("[",Chain)
 S3method("[",Discord)
 S3method("[",Floss)
 S3method("[",Fluss)
+S3method("[",MPdistProfile)
 S3method("[",MatrixProfile)
 S3method("[",Motif)
 S3method("[",MultiMatrixProfile)
 S3method("[",MultiMotif)
 S3method("[",PMP)
 S3method("[",Salient)
 S3method("[",SimpleMatrixProfile)
+S3method("[",Snippet)
 S3method(find_discord,MatrixProfile)
 S3method(find_discord,PMP)
 S3method(find_motif,MatrixProfile)
 S3method(find_motif,MultiMatrixProfile)
 S3method(find_motif,PMP)
+S3method(head,MatrixProfile)
+S3method(head,MultiMatrixProfile)
+S3method(head,SimpleMatrixProfile)
 S3method(plot,ArcCount)
 S3method(plot,Chain)
 S3method(plot,Discord)
@@ -47,6 +52,9 @@ S3method(print,SimpleMatrixProfile)
 S3method(print,Snippet)
 S3method(print,Valmod)
 S3method(read,default)
+S3method(tail,MatrixProfile)
+S3method(tail,MultiMatrixProfile)
+S3method(tail,SimpleMatrixProfile)
 S3method(write,MatrixProfile)
 S3method(write,PMP)
 S3method(write,default)
@@ -124,4 +132,6 @@ importFrom(Rcpp,sourceCpp)
 importFrom(RcppParallel,RcppParallelLibs)
 importFrom(magrittr,"%>%")
 importFrom(magrittr,"%T>%")
+importFrom(utils,head)
+importFrom(utils,tail)
 useDynLib(tsmp, .registration = TRUE)
diff --git a/NEWS b/NEWS
@@ -1,22 +1,22 @@
 <!-- NEWS.md is generated from NEWS.Rmd. Please edit that file -->
 
-tsmp 0.4.14
-===========
+# tsmp 0.4.15
+
+-   Fix UBSAN error
+
+# tsmp 0.4.14
 
 -   Fix ASAN/UBSAN errors using RcppParallel
 
-tsmp 0.4.11
-===========
+# tsmp 0.4.11
 
 -   Fix in `mpx()`.
 
-tsmp 0.4.9
-==========
+# tsmp 0.4.9
 
 -   Fixed MacOSX build.
 
-tsmp 0.4.8
-==========
+# tsmp 0.4.8
 
 -   Added MPdist algorithm to compare two time series.
 -   Added `find_snippet()` that uses MPdist to show representative data.
@@ -27,8 +27,7 @@ tsmp 0.4.8
 -   Added `compute()`, `analyze()` and `visualize()`. Starting point in
     the unified API from MPF.
 
-tsmp 0.3.5
-==========
+# tsmp 0.3.5
 
 -   Changed `mass()` to `dist_profile()`, including options to different
     algorithms.
@@ -45,22 +44,19 @@ tsmp 0.3.5
 -   Changed `find_motif()` for `MultiMatrixProfile` to report Motifs
     correctly.
 
-tsmp 0.3.4
-==========
+# tsmp 0.3.4
 
 -   Added `find_discord()` and its `print()` and `plot()` functions.
 -   Changed `plot()` for motifs to show where are the neighbors. Same
     for discord.
 -   Added `valmod()` for Variable Length Motif Discovery.
 -   Changed `find_motif()` for compatibility with `valmod()`.
 
-tsmp 0.3.3
-==========
+# tsmp 0.3.3
 
 -   Fixed `find_chains()` not returning the longest chain. Issue \#33
 
-tsmp 0.3.2
-==========
+# tsmp 0.3.2
 
 -   Fixed Matrix Profile print, dimensions are now reported correctly.
 -   Fixed pipe imports. Issue \#22
@@ -74,18 +70,15 @@ tsmp 0.3.2
 -   Added Print and Plot to SiMPle. Issue \#24
 -   Added Print and Plot to Salient.
 
-tsmp 0.3.1
-==========
+# tsmp 0.3.1
 
-IMPORTANT
----------
+## IMPORTANT
 
 -   This version is a complete restructuration. The API has changed, and
     the workflow is more friendly. This API is intended to be stable,
     and from now on any change will pass through the “Deprecated” stage.
 
-Added Features
---------------
+## Added Features
 
 -   Outputs have a prettier print format.
 -   Outputs have a plot function. Try to plot a `tsmp()` output for
@@ -104,14 +97,12 @@ Added Features
 -   Added support to query &lt; data in Joins.
 -   SCRIMP (experimental).
 
-tsmp 0.2.15
-===========
+# tsmp 0.2.15
 
 -   Code linting.
 -   Added Salient Subsequences search.
 
-tsmp 0.2.14
-===========
+# tsmp 0.2.14
 
 -   Added SiMPle (Fast Similarity Matrix Profile for Music Analysis and
     Exploration).
@@ -122,14 +113,12 @@ tsmp 0.2.14
     audio, so fewer dependencies).
 -   Added a `NEWS.md` file to track changes to the package.
 
-tsmp 0.2.12
-===========
+# tsmp 0.2.12
 
 -   Added Multivariate STOMP parallel version.
 -   Added SDTS algorithm (Scalable Dictionary learning for Time Series).
 
-tsmp 0.1.0
-==========
+# tsmp 0.1.0
 
 -   STAMP and STAMP parallel Algorithm.
 -   Multivariate STOMP algorithm.

diff --git a/NEWS.Rmd b/NEWS.Rmd
@@ -21,6 +21,9 @@ knitr::opts_chunk$set(
 )
 ```
 
+# tsmp 0.4.15
+* Fix UBSAN error
+
 # tsmp 0.4.14
 * Fix ASAN/UBSAN errors using RcppParallel
 
@@ -52,7 +55,7 @@ knitr::opts_chunk$set(
 
 # tsmp 0.3.4
 * Added `find_discord()` and its `print()` and `plot()` functions.
-* Changed `plot()` for motifs to show where are the neighbors. Same for discord. 
+* Changed `plot()` for motifs to show where are the neighbors. Same for discord.
 * Added `valmod()` for Variable Length Motif Discovery.
 * Changed `find_motif()` for compatibility with `valmod()`.