Difference between revisions of "Bioscape Web Resources"
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The Bioscape Web resources provide the principal end-user interface to Bioscape as described in the [[Using the Bioscape Web Application|"Using the Bioscape Web Application"]] document. Typically, a user will follow a specific workflow supported by a number of resources described in the application's "site map", found in the <tt>bsweb</tt> package (specifically in the <tt>__init__.py</tt> source file) in the <tt>bsweb</tt> distribution. The following table summarises the source code organisation: | The Bioscape Web resources provide the principal end-user interface to Bioscape as described in the [[Using the Bioscape Web Application|"Using the Bioscape Web Application"]] document. Typically, a user will follow a specific workflow supported by a number of resources described in the application's "site map", found in the <tt>bsweb</tt> package (specifically in the <tt>__init__.py</tt> source file) in the <tt>bsweb</tt> distribution. The following table summarises the source code organisation: | ||
| − | {| cellspacing="0" cellpadding="5" style=" | + | {| border="1" cellspacing="0" cellpadding="5" style="margin: 2em" |
! Pages | ! Pages | ||
! Logic package/module | ! Logic package/module | ||
! Database access package/module | ! Database access package/module | ||
| + | ! Templates | ||
|- | |- | ||
| home ([[Using the Bioscape Web Application#Searching|search]]), index ([[Using the Bioscape Web Application#Advanced_Search|advanced search]]) | | home ([[Using the Bioscape Web Application#Searching|search]]), index ([[Using the Bioscape Web Application#Advanced_Search|advanced search]]) | ||
| <tt>bsweb.pages</tt> | | <tt>bsweb.pages</tt> | ||
| <tt>bsweb.pages.collections</tt> | | <tt>bsweb.pages.collections</tt> | ||
| + | | <tt>home_template.xhtml</tt>, <tt>index_template.xhtml</tt> | ||
|- | |- | ||
| [[Using the Bioscape Web Application#Search_Disambiguation|gene disambiguation]], [[Using the Bioscape Web Application#Gene_Summaries|gene summary]] | | [[Using the Bioscape Web Application#Search_Disambiguation|gene disambiguation]], [[Using the Bioscape Web Application#Gene_Summaries|gene summary]] | ||
| <tt>bsweb.genes</tt> | | <tt>bsweb.genes</tt> | ||
| <tt>bsweb.genes.collections</tt> | | <tt>bsweb.genes.collections</tt> | ||
| + | | <tt>gene_disambiguation_template.xhtml</tt><br><tt>gene_summary_template.xhtml</tt> | ||
|- | |- | ||
| [[Using the Bioscape Web Application#Mention_Sentences|gene and evidence mention summaries]] || <tt>bsweb.documents</tt> || <tt>bsweb.documents.viewers</tt> | | [[Using the Bioscape Web Application#Mention_Sentences|gene and evidence mention summaries]] || <tt>bsweb.documents</tt> || <tt>bsweb.documents.viewers</tt> | ||
| + | | <tt>text_mentions_template.xhtml</tt><br><tt>text_evidence_mentions_template.xhtml</tt> | ||
|- | |- | ||
| [[Using the Bioscape Web Application#Navigating_Document_Versions|document lists]] || <tt>bsweb.documents</tt> || <tt>bsweb.documents.collections</tt> | | [[Using the Bioscape Web Application#Navigating_Document_Versions|document lists]] || <tt>bsweb.documents</tt> || <tt>bsweb.documents.collections</tt> | ||
| + | | <tt>text_index_generation_documents_template.xhtml</tt><br><tt>text_search_generation_documents_template.xhtml</tt><br><tt>text_results_generation_documents_template.xhtml</tt><br><tt>text_evidence_generation_documents_template.xhtml</tt> | ||
|- | |- | ||
| [[Using the Bioscape Web Application#Document_Summaries|annotated documents]] || <tt>bsweb.documents</tt> || <tt>bsweb.documents.viewers</tt> | | [[Using the Bioscape Web Application#Document_Summaries|annotated documents]] || <tt>bsweb.documents</tt> || <tt>bsweb.documents.viewers</tt> | ||
| + | | <tt>text_index_generation_document_template.xhtml</tt><br><tt>text_search_generation_document_template.xhtml</tt><br><tt>text_results_generation_document_template.xhtml</tt><br><tt>text_evidence_generation_document_template.xhtml</tt> | ||
|- | |- | ||
| [[Using the Bioscape Web Application#Scoring_and_Methods|mention scoring summaries]] || <tt>bsweb.documents</tt> || <tt>bsweb.documents.collections</tt> | | [[Using the Bioscape Web Application#Scoring_and_Methods|mention scoring summaries]] || <tt>bsweb.documents</tt> || <tt>bsweb.documents.collections</tt> | ||
| + | | <tt>text_scored_bioentity_template.xhtml</tt><br><tt>text_scored_bioentities_template.xhtml</tt> | ||
|} | |} | ||
Latest revision as of 13:47, 14 July 2010
 Note | Please note that this documentation covers an unreleased product and is for internal use only. |
The Bioscape Web resources provide the principal end-user interface to Bioscape as described in the "Using the Bioscape Web Application" document. Typically, a user will follow a specific workflow supported by a number of resources described in the application's "site map", found in the bsweb package (specifically in the __init__.py source file) in the bsweb distribution. The following table summarises the source code organisation:
| Pages | Logic package/module | Database access package/module | Templates |
|---|---|---|---|
| home (search), index (advanced search) | bsweb.pages | bsweb.pages.collections | home_template.xhtml, index_template.xhtml |
| gene disambiguation, gene summary | bsweb.genes | bsweb.genes.collections | gene_disambiguation_template.xhtml gene_summary_template.xhtml |
| gene and evidence mention summaries | bsweb.documents | bsweb.documents.viewers | text_mentions_template.xhtml text_evidence_mentions_template.xhtml |
| document lists | bsweb.documents | bsweb.documents.collections | text_index_generation_documents_template.xhtml text_search_generation_documents_template.xhtml text_results_generation_documents_template.xhtml text_evidence_generation_documents_template.xhtml |
| annotated documents | bsweb.documents | bsweb.documents.viewers | text_index_generation_document_template.xhtml text_search_generation_document_template.xhtml text_results_generation_document_template.xhtml text_evidence_generation_document_template.xhtml |
| mention scoring summaries | bsweb.documents | bsweb.documents.collections | text_scored_bioentity_template.xhtml text_scored_bioentities_template.xhtml |
To summarise, page functionality typically resides in the top-level of a package, database queries providing lists of results reside in collections modules, and the special database/text index combination supporting annotated documents resides in the viewers module in the bsweb.documents package.
