From 4432382693f4e824f2fd5e482692c33772b7568a Mon Sep 17 00:00:00 2001 From: Clair Blacketer Date: Wed, 8 Feb 2023 15:04:22 -0500 Subject: [PATCH] Minor updates to package This release has some minor bugfixes and updates to the rmd files --- .gitignore | 1 + DESCRIPTION | 2 +- docs/background.html | 140 +- docs/cdm30.html | 21 +- docs/cdm53.html | 2414 ++++++++++++--- docs/cdm531.html | 28 +- docs/cdm54.html | 2753 +++++++++++++---- docs/cdm54Changes.html | 58 +- docs/cdm60.html | 2628 +++++++++++++--- docs/cdmDecisionTree.html | 37 +- docs/cdmPrivacy.html | 329 +- docs/cdmRPackage.html | 27 +- docs/cdmRefreshProcess.html | 105 +- docs/cdmRequestProcess.html | 148 +- docs/contactVocab.html | 37 +- docs/contribute.html | 33 +- docs/dataModelConventions.html | 645 +++- docs/download.html | 36 +- docs/drug_dose.html | 99 +- docs/ehrObsPeriods.html | 141 +- docs/faq.html | 446 ++- docs/index.html | 16 +- docs/indices-primary-foreign.html | 74 +- docs/leaveAsIs.html | 26 +- docs/localChange.html | 26 +- docs/networkUseCase.html | 25 +- docs/oncology.html | 83 +- docs/queries.html | 38 +- docs/reviewProposals.html | 23 +- .../header-attrs-2.13/header-attrs.js | 12 - docs/sqlScripts.html | 71 +- docs/useCaseN.html | 29 +- docs/useCaseY.html | 28 +- docs/vocabN.html | 29 +- docs/vocabRequest.html | 36 +- docs/vocabY.html | 22 +- docs/vocabulary.html | 296 +- extras/codeToRun.R | 6 +- .../OMOPCDM_bigquery_5.4_constraints.sql | 176 -- .../5.4/bigquery/OMOPCDM_bigquery_5.4_ddl.sql | 145 +- .../bigquery/OMOPCDM_bigquery_5.4_indices.sql | 60 - .../OMOPCDM_bigquery_5.4_primary_keys.sql | 28 - .../impala/OMOPCDM_impala_5.4_constraints.sql | 176 -- .../ddl/5.4/impala/OMOPCDM_impala_5.4_ddl.sql | 39 - .../5.4/impala/OMOPCDM_impala_5.4_indices.sql | 60 - .../OMOPCDM_impala_5.4_primary_keys.sql | 28 - .../OMOPCDM_netezza_5.4_constraints.sql | 176 -- .../5.4/netezza/OMOPCDM_netezza_5.4_ddl.sql | 39 - .../netezza/OMOPCDM_netezza_5.4_indices.sql | 60 - .../OMOPCDM_netezza_5.4_primary_keys.sql | 28 - .../oracle/OMOPCDM_oracle_5.4_constraints.sql | 176 -- .../ddl/5.4/oracle/OMOPCDM_oracle_5.4_ddl.sql | 39 - .../5.4/oracle/OMOPCDM_oracle_5.4_indices.sql | 60 - .../OMOPCDM_oracle_5.4_primary_keys.sql | 28 - .../5.4/pdw/OMOPCDM_pdw_5.4_constraints.sql | 176 -- inst/ddl/5.4/pdw/OMOPCDM_pdw_5.4_ddl.sql | 117 +- inst/ddl/5.4/pdw/OMOPCDM_pdw_5.4_indices.sql | 60 - .../5.4/pdw/OMOPCDM_pdw_5.4_primary_keys.sql | 28 - .../OMOPCDM_postgresql_5.4_constraints.sql | 176 -- .../postgresql/OMOPCDM_postgresql_5.4_ddl.sql | 39 - .../OMOPCDM_postgresql_5.4_indices.sql | 60 - .../OMOPCDM_postgresql_5.4_primary_keys.sql | 28 - .../OMOPCDM_redshift_5.4_constraints.sql | 176 -- .../5.4/redshift/OMOPCDM_redshift_5.4_ddl.sql | 39 - .../redshift/OMOPCDM_redshift_5.4_indices.sql | 60 - .../OMOPCDM_redshift_5.4_primary_keys.sql | 28 - .../OMOPCDM_snowflake_5.4_constraints.sql | 37 +- .../snowflake/OMOPCDM_snowflake_5.4_ddl.sql | 918 +++--- .../OMOPCDM_snowflake_5.4_indices.sql | 97 + .../OMOPCDM_snowflake_5.4_primary_keys.sql | 5 +- inst/ddl/5.4/spark/OMOPCDM_spark_5.4_ddl.sql | 351 ++- .../5.4/spark/OMOPCDM_spark_5.4_indices.sql | 32 - .../OMOPCDM_synapse_5.4_constraints.sql | 178 +- .../5.4/synapse/OMOPCDM_synapse_5.4_ddl.sql | 933 +++--- .../synapse/OMOPCDM_synapse_5.4_indices.sql | 84 +- .../OMOPCDM_synapse_5.4_primary_keys.sql | 86 +- man/createDdl.Rd | 6 +- man/writeDdl.Rd | 11 +- rmd/cdm53.Rmd | 2 +- rmd/cdm54.Rmd | 2 +- rmd/cdm60.Rmd | 2 +- 81 files changed, 10361 insertions(+), 5656 deletions(-) delete mode 100644 docs/site_libs/header-attrs-2.13/header-attrs.js diff --git a/.gitignore b/.gitignore index c6348106..3d582222 100644 --- a/.gitignore +++ b/.gitignore @@ -15,3 +15,4 @@ ehthumbs.db Thumbs.db extras/codeToRun.R output/ +ddl/ diff --git a/DESCRIPTION b/DESCRIPTION index 9e8b93e4..5ec34b2b 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -24,5 +24,5 @@ Suggests: RSQLite, withr NeedsCompilation: no -RoxygenNote: 7.1.1 +RoxygenNote: 7.2.1 Config/testthat/edition: 3 diff --git a/docs/background.html b/docs/background.html index 56faabae..fab210ce 100644 --- a/docs/background.html +++ b/docs/background.html @@ -11,9 +11,9 @@ -background.knit + OMOP CDM Background - + @@ -148,11 +148,15 @@ href = "index.html"; var menuAnchor = $('a[href="' + href + '"]'); - // mark it active - menuAnchor.tab('show'); - - // if it's got a parent navbar menu mark it active as well - menuAnchor.closest('li.dropdown').addClass('active'); + // mark the anchor link active (and if it's in a dropdown, also mark that active) + var dropdown = menuAnchor.closest('li.dropdown'); + if (window.bootstrap) { // Bootstrap 4+ + menuAnchor.addClass('active'); + dropdown.find('> .dropdown-toggle').addClass('active'); + } else { // Bootstrap 3 + menuAnchor.parent().addClass('active'); + dropdown.addClass('active'); + } // Navbar adjustments var navHeight = $(".navbar").first().height() + 15; @@ -327,7 +331,7 @@