Commit 43ca35e
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updating to sgn-440.0. Adds a transcriptomics section to the manual; adds support for Synonym Search Tool auth client; fixes aspects of the find genotypes by accession feature and allow filtering by genotyping projects; adds study create date to additional info for BrAPI call (needs to be added to the spec!).
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lines changed- docs/404.html+91-83
- docs/BreedbaseManual.pdf
- docs/BreedbaseManual.tex+43-1
- docs/Using-Field-Book-with-BreedBase.html+91-83
- docs/assets/images/create_transcriptomics_protocol.png
- docs/assets/images/data_matrix_example.png
- docs/assets/images/data_matrix_headers.png
- docs/assets/images/download_transcriptomics.png
- docs/assets/images/transcript_details_example.png
- docs/assets/images/transcript_details_headers.png
- docs/assets/images/transcriptomics_menu.png
- docs/basic-website-usage.html+91-83
- docs/data-analysis-tools.html+152-144
- docs/index.html+92-84
- docs/managing-accessions.html+91-83
- docs/managing-barcodes.html+98-90
- docs/managing-breeding-programs.html+91-83
- docs/managing-crosses.html+91-83
- docs/managing-downloads.html+96-88
- docs/managing-field-trials.html+91-83
- docs/managing-genotyping-plates.html+91-83
- docs/managing-high-dimensional-phenotyping-data.html+481
- docs/managing-image-data.html+104-96
- docs/managing-locations.html+91-83
- docs/managing-observation-variables.html+98-90
- docs/managing-odk-data-collection.html+106-98
- docs/managing-outliers-in-dataset.html+108-100
- docs/managing-phenotypic-data.html+93-85
- docs/managing-phenotypic-image-data.html+100-92
- docs/managing-populations.html+91-83
- docs/managing-seed-lots.html+91-83
- docs/managing-sequence-metadata.html+110-102
- docs/managing-spectral-data.html+106-98
- docs/managing-tissue-samples.html+100-92
- docs/managing-user-roles.html+91-83
- docs/managing-vcf-data.html+104-96
- docs/r_markdown_docs/BreedbaseManual.log+193-148
- docs/r_markdown_docs/_bookdown.yml+1
- docs/r_markdown_docs/assets/images/create_transcriptomics_protocol.png
- docs/r_markdown_docs/assets/images/data_matrix_example.png
- docs/r_markdown_docs/assets/images/data_matrix_headers.png
- docs/r_markdown_docs/assets/images/download_transcriptomics.png
- docs/r_markdown_docs/assets/images/transcript_details_example.png
- docs/r_markdown_docs/assets/images/transcript_details_headers.png
- docs/r_markdown_docs/assets/images/transcriptomics_menu.png
- docs/r_markdown_docs/managing_high_dim_phenotyping_data.Rmd+51
- docs/search_index.json+1-1
- docs/searching-the-database.html+91-83
- docs/using-the-label-designer.html+104-96
- docs/vector-viewer.html+96-88
- js/source/entries/wizard.js+2-1
- js/source/legacy/CXGN/List.js+3-1
- lib/CXGN/BrAPI/v2/Studies.pm+1
- lib/CXGN/Trial/Search.pm+4-3
- lib/SGN/Controller/AJAX/Search/GenotypingDataProject.pm+120
- lib/SGN/Controller/AJAX/Search/GenotypingProtocol.pm+60-52
- mason/search/genotyping_data_projects.mas+8
- mason/search/genotyping_projects_accession_filter.mas+210
- mason/search/genotyping_protocols_accession_filter.mas+2-2
- sgn.conf+1-1
- t/unit_fixture/CXGN/Trial.t+24-18
- t/unit_mech/AJAX/GenotypeSearch.t+139
- t/unit_mech/AJAX/_BrAPIv2_core.t+5-5
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