1007 update website (#1008)

* Deleted old (release) website
Added utf8 check
Small fixes in NEWS.md
Typo fixes

* Adjust README.md (minimal versions) and _pkgdown.yml (new/modiefied functions)

* Fixes #1007 Update website for 2.1 Release

* Keep only Centos7/R4 for the Linux tests

* Remove utf8 check until it cannot properly handle file names with blanks

* adjust linux test images

---------

Co-authored-by: Yuri05 <[email protected]>

Author: Yuri05

.github/workflows/LinuxImages.yml

@@ -8,8 +8,8 @@ jobs:
     strategy:
         fail-fast: false
         matrix:
-            r_version: [3.6.3, 4.1.0]
-            os_version: [centos7, bionic]
+            r_version: [4.1.0] #[3.6.3, 4.1.0]
+            os_version: [bionic] #[centos7, bionic]
     runs-on: ubuntu-latest
     steps:
       - name: Checkout

NEWS.md

@@ -1,8 +1,8 @@
-# ospsuite.reportingengine 2.1.0
+# ospsuite.reportingengine 2.1.244
 
 ## New features
 
-- Population workflows can use Monte Carlo sampling to handle ratio comparison (#536) as documented in article [PK Parameters in Population Workflows](../articles/pop-pk-parameters.html#ratio-comparison).
+- Population workflows can use Monte Carlo sampling to handle ratio comparison (#536) as documented in the article [PK Parameters in Population Workflows](../articles/pop-pk-parameters.html#ratio-comparison).
 - [`Output`](../reference/Output.html) objects can now include `color` and `fill` properties that will be displayed in the corresponding plots (#418, #883)
 - `dataSelection` is now available at both `SimulationSet` and `Output` levels (#881)
 - Excel template is up-to-date with the new features (#882) and documented in the article [Excel Template](../articles/excel-template.html)
@@ -26,23 +26,23 @@
    - figure/table numbering (#967) are now fixed
    - default reference word document has been updated (#748, #749, #750 and #754)
    - tags for subscript (wrapped by `<sub>...</sub>`) and superscript (wrapped by `<sup>...</sup>`) are converted to word (#968)
-   - equations wrapped by `$$...$$` and written in LateX format are converted to word
+   - equations wrapped by `$$...$$` and written in LaTeX format are converted to word
    - bookmarks are now created from markdown anchors (#923)
 - Qualification time profiles use base unit if unit is not defined by user (#867, #991)
 
-# ospsuite.reportingengine 2.0.0
+# ospsuite.reportingengine 2.0.191
 
 ## New features
 
 - Qualification workflows are now available ! (#2)
   - Qualification Workflows have their own [vignette](../articles/qualification-workflow.html) to help you start (#566)
-  - A template qualification workflow R script is available on Github at `system.file("extdata", "qualification-workflow-template.R", package = "ospsuite.reportingengine")` and can also be downloaded from [Github](https://github.com/Open-Systems-Pharmacology/OSPSuite.ReportingEngine/blob/develop/inst/extdata/qualification-workflow-template.R) (#572)
+  - A template qualification workflow R script is available on GitHub at `system.file("extdata", "qualification-workflow-template.R", package = "ospsuite.reportingengine")` and can also be downloaded from [GitHub](https://github.com/Open-Systems-Pharmacology/OSPSuite.ReportingEngine/blob/develop/inst/extdata/qualification-workflow-template.R) (#572)
   - Function `adjustTitlePage` can be used to personalize the report title page (#755)
   - Configuration plans can be re-loaded on `QualificationWorkflow` objects to update the report display (#567)
   - DDI subunits option is available (#642)
 - With `ospsuite` version 10, simulations can be run in parallel (#526)
 - Workflows account for time offset in simulation sets using option `timeOffset` for time profile plots (#313) or through user defined PK parameters for PK parameter plots (#578).
-- User can define their own word report template to tune the styles of their report by providing a reference word document to the `wordConversionTemplate` of their Workflow object. A word reference template is available on [Github](https://github.com/Open-Systems-Pharmacology/OSPSuite.ReportingEngine/blob/develop/inst/extdata/reference.docx) (#756)
+- User can define their own word report template to tune the styles of their report by providing a reference word document to the `wordConversionTemplate` of their Workflow object. A word reference template is available on [GitHub](https://github.com/Open-Systems-Pharmacology/OSPSuite.ReportingEngine/blob/develop/inst/extdata/reference.docx) (#756)
 - The function `copyReport` can be used to copy markdown/word reports (#814)
 
 ## Minor improvements and bug fixes

README.md

@@ -27,12 +27,12 @@ The **OSPSuite.ReportingEngine** package is compatible with version 3.6.x **AND*
   - **styler**
   - ... (s. [Installation instructions for the package **ospsuite**](https://github.com/Open-Systems-Pharmacology/OSPSuite-R#installation))
 - Must be downloaded manually:
-  - **ospsuite.utils** (>= 1.3.0)
+  - **ospsuite.utils** (>= 1.4.0)
     - [Package download](https://github.com/Open-Systems-Pharmacology/OSPSuite.RUtils/releases)
-  - **tlf** (>= 1.4.0)
+  - **tlf** (>= 1.5.0)
     - [Package download](https://github.com/Open-Systems-Pharmacology/TLF-Library/releases)
   - **rClr** (s. [Installation instructions for the package **ospsuite**](https://github.com/Open-Systems-Pharmacology/OSPSuite-R#installation))
-  - **ospsuite** (>= 11.0)
+  - **ospsuite** (>= 11.1)
     - [Package download](https://github.com/Open-Systems-Pharmacology/OSPSuite-R/releases)
     - [Installation instructions](https://github.com/Open-Systems-Pharmacology/OSPSuite-R#installation)
 

_pkgdown.yml

@@ -55,6 +55,7 @@ reference:
   - matches("calculateGeometricErrorRange")
   - matches("calculateGMFE")
   - matches("calculateResiduals")
+  - matches("displayConfigurationPlanPlotInfo")
   - matches("getResiduals")
   - matches("isBetween")
   - matches("measureValuesBetween")
@@ -79,7 +80,8 @@ reference:
   - matches("plotMeanResVsPred")
   - matches("plotMeanResVsTime")
   - matches("plotMeanTimeProfile")
-  - matches("plotPopulationTimeProfile")
+  - matches("plotPopTimeProfile")
+  - matches("plotPopTimeProfileLog")
   - matches("plotResidualsHistogram")
   - matches("plotResidualsQQPlot")
   - matches("ratioBoxplot")