gsm v2.1.0

Overview

This minor release addresses workflow updates which are required for improved modularity and automation. These updates include:

• Specification of all required data sources in all yaml workflow files, via the spec section of the yaml, which are checked
• Allow a master spec document to be constructed via the CombineSpecs.
• Enforce that by default, each yaml file produces only one output- the final output in the workflow steps.
• Parse out the mapping yamls into individual workflows, one per mapped dataframe.
• Create a standard structure for yamls and the directories that yamls are stored in, specified in vignette('gsmExtensions'),

What's Changed

• Prototype Data Specification Framework by @jwildfire in #1746
• Use required param from spec in CheckSpec() by @lauramaxwell in #1786
• Add explicit snapshot date subset to Widget_GroupOverview. by @samussiah in #1789
• Mapping workflow refactor by @jwildfire in #1785
• Add a function to cleanly convert Params to Labels. by @jonthegeek in #1791
• Report_StudyInfo: Show/Hide by @jonthegeek in #1803
• Reporting Workflow Refactor by @jwildfire in #1783
• Add type field and query columns to all specs by @lauramaxwell in #1808
• Add type validation to CheckSpec() by @lauramaxwell in #1814
• Closes #1760 Updating dropdown menu for articles in website by @zdz2101 in #1811
• Closes #1779 Enhance CombineSpecs() with deduplication, enforcing required and adding checks for type by @zdz2101 in #1815
• Closes #1722 Study Status Table display bugfix of indiscriminant first five attributes by @zdz2101 in #1812
• Update PR template by @lauramaxwell in #1826
• Simpler depends by @jonthegeek in #1809
• Update sample reporting data by @lauramaxwell in #1828
• Add all required spec tables to workflows by @lauramaxwell in #1827
• Closes #1795 add assertions/stopifnot for widget inputs by @zdz2101 in #1829
• Closes #1728 Adds footnote to scatterplot widget by @zdz2101 in #1831
• Add subjid to EDC domains in mapping workflow. by @samussiah in #1844
• MakeMetricTable() by @jonthegeek in #1843
• make analysis workflow work by @samussiah in #1847
• MakeStudyInfo() function by @jonthegeek in #1849
• Update checkSpec() cli message to handle _all required by @lauramaxwell in #1851
• Ingest modular by @jwildfire in #1852
• Closes #1636 allows Visualize_Metric() to run on just results by @zdz2101 in #1833
• Refactor Data Ingestion Workflow by @jwildfire in #1841
• Closes #1653 adds Flag Over Time Widget to Study Overview as a tab by @zdz2101 in #1850
• Load/Save - Take 2 by @jwildfire in #1864
• gsm extensions vignette by @lauramaxwell in #1813
• Closes #1859 checks and updates qualification tests in test/testqualification to align with new workflows for v2.1.0 release by @zdz2101 in #1862
• Add rbm-viz v2.1.0. by @samussiah in #1856
• Closes #1863 address small bugs in MakeWorkflowList() run as intended by @zdz2101 in #1869
• Gsm v2.1.0 Release Candidate by @lauramaxwell in #1867

New Contributors

• @zdz2101 made their first contribution in #1811

Full Changelog: v1.9.2...v2.1.0