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Changelog

segtools 1.1.2

  • New vignette for ggplot2 SEG graph (not used in application)

  • New vignette for hex sticker (using patchwork, hexSticker and magick)

  • Updated README with reference

segtools 1.1.1

  • New tests for import_flat_file()

    ==> devtools::test()

ℹ Testing segtools
✔ | F W S  OK | Context
✔ |         3 | import_flat_file [0.2s]                                                                     
✔ |         1 | seg_binom_table [0.5s]                                                                      
✔ |         1 | seg_iso_range_tbl [0.6s]                                                                    
✔ |         1 | seg_iso_vars [0.4s]                                                                       
✔ |         1 | seg_pair_type_tbl [0.1s]                                                                    
✔ |         1 | seg_risk_cat_tbl [0.4s]                                                                     
✔ |         1 | seg_risk_cat_vars [0.2s]                                                                    
✔ |         1 | seg_risk_cols [0.7s]                                                                        
✔ |         1 | seg_risk_grade_tbl [0.4s]                                                                      

══ Results ══════════════════════════════════════════════════════════════════
Duration: 3.7 s

[ FAIL 0 | WARN 0 | SKIP 0 | PASS 11 ]

Graphs

  • Updated seg_modba_graph.R

    • Now includes a fill and color var input (using shape 21)

    • Text size increased for better web rendering

  • Updated seg_graph.R

    • New points and lines with higher contrast colors

    • Axis titles added

    • Text size increased for better web rendering

segtools 1.1.0

  • Updated functions to standardize names:

    • functions and outputs with a _cols suffix are intermediate/utility functions
    • functions and outputs with a _vars suffix are create outputs for the primary _tbl and _graph functions
    • input arguments align with function names (i.e. seg_risk_vars() creates the output for functions with the risk_vars argument)

  • Re-written risk-tables vignette to be more organized.

  • Added SEG Graph vignette

segtools 1.0.0

  • Updated package functions to match shiny application outputs


  • Unit tests for each function

    ==> devtools::test()

ℹ Testing segtools
✔ | F W S  OK | Context
✔ |         1 | seg_binom_tbl [0.5s]                     
✔ |         1 | seg_iso_range_tbl [0.4s]                    
✔ |         1 | seg_iso_cols [0.3s]                         
✔ |         1 | seg_pair_type_tbl                           
✔ |         1 | seg_risk_cat_tbl [0.3s]                    
✔ |         1 | seg_risk_cat_cols [0.3s]                   
✔ |         1 | seg_risk_vars [0.6s]                       
✔ |         1 | seg_risk_grade_tbl [0.3s]                  

══ Results ═══════════════════════════════════
Duration: 2.8 s

[ FAIL 0 | WARN 0 | SKIP 0 | PASS 8 ]

  • Data from previous build accessible with get_seg_data() function

    get_seg_data('VanderbiltComplete')
# A tibble: 9,891 × 2                                                            
     BGM   REF
   <dbl> <dbl>
 1   121   127
 2   212   223
 3   161   166
 4   191   205
 5   189   210
 6   104   100
 7   293   296
 8   130   142
 9   261   231
10   147   148
# … with 9,881 more rows
# ℹ Use `print(n = ...)` to see more rows
    • Use get_seg_data('names') for list of datasets
    get_seg_data('names')
 [1] "VanderbiltComplete.csv"   "AppRiskPairData.csv"      "RiskPairData.csv"        
 [4] "AppLookUpRiskCat.csv"     "LookUpRiskCat.csv"        "AppTestData.csv"         
 [7] "AppTestDataSmall.csv"     "AppTestDataMed.csv"       "AppTestDataBig.csv"      
[10] "FullSampleData.csv"       "ModBAData.csv"            "No_Interference_Dogs.csv"
[13] "SEGRiskTable.csv"         "SampMeasData.csv"         "SampleData.csv"          
[16] "lkpRiskGrade.csv"         "lkpSEGRiskCat4.csv"

segtools 0.0.1

  • This package has been configured to use the pak + renv by including renv.config.pak.enabled = TRUE in the .Rprofile

segtools 0.0.0.9000

pkgdown

✖ Failed to build segtools 0.0.0.9000
  Error: 
  ! error in pak subprocess
  Caused by error in `stop_task_build(state, worker)`:
  ! Failed to build source package 'segtools'
  Full installation output:
  * installing *source* package ‘segtools’ ...
  staged installation is only possible with locking
  ** using non-staged installation
  ** R
  ** data
  *** moving datasets to lazyload DB
  ** inst
  ** byte-compile and prepare package for lazy loading
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : 
    there is no package called ‘readxl’
  Calls: <Anonymous> ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
  Execution halted
  ERROR: lazy loading failed for package ‘segtools’
  * removing ‘/tmp/RtmpHJLGW5/pkg-lib1352430479ed/segtools’
  ---
  Backtrace:
  1. pak::lockfile_install(".github/pkg.lock")
  2. pak:::remote(function(...) { …
  3. err$throw(res$error)
  ---
  Subprocess backtrace:
   1. base::withCallingHandlers(cli_message = function(msg) { …
   2. get("lockfile_install_internal", asNamespace("pak"))(...)
   3. plan$install()
   4. pkgdepends::install_package_plan(plan, lib = private$library, num_workers = nw, …
   5. base::withCallingHandlers({ …
   6. pkgdepends:::handle_events(state, events)
   7. pkgdepends:::handle_event(state, i)
   8. pkgdepends:::stop_task(state, worker)
   9. pkgdepends:::stop_task_build(state, worker)
  10. base::throw(new_pkg_build_error("Failed to build source package {pkg}", …
  11. | base::signalCondition(cond)
  12. global (function (e) …
  Execution halted
  Error: Process completed with exit code 1.

After removing the readxl from the package, the build worked (almost).

  1. Buildpkgdown build #7 #5

The deploy step encountered an error: The process '/usr/bin/git' failed with exit code 128 ❌

This required changing the settings under Settings > Actions > General > change Workflow permissions to Read and write permissions

  1. Build #7
  • Added a NEWS.md file to track changes to the package.