File Changes for angie

v270_preview to v270_preview2 (2012-07-03 to 2012-07-10) v270

• src/hg/hgVarAnnogrator/hgVarAnnogrator.c
  • lines changed 736, context: html, text, full: html, text
    Feature #6152 (Variant Annotation Integrator): Major UI work done in adev branch over the past month.
    1. For new "lite" sections, use CSS instead of 3-level nested tables.
    2. Use classes and CSS properties instead of extra divs just to add
    vertical space.
    3. CGI parses JSON from UI into hierarchical data structures and builds
    contents from those data structures instead of ever-growing arg lists.
    4. Proper use of name instead of id for non-uniquely named elements.
    5. Filter inputs: CGI builds up Javascript object literal vars describing
    available (not yet configured) and active (configured by user) filters.
    Javascript uses the vars to display active filters and offer choices
    when user clicks "Add Filter". New filters configured by user are
    sent back to CGI in querySpec JSON.
    Note: filters aren't yet applied when executing queries! (don't work)
    6. Javascript handles updates to intersectSel elements when there's a new
    primary source. Ajax to CGI still needed for updating which output
    formats are possible given types of inputs.
    7. Better handling of error 500's (give user something to paste so we can
    reproduce, instead of pulling entire err500 HTML page into warnBox).
    8. Make it possible for an annoFilter to be a function on an entire row
    instead of anchored to a single column. This will enable more flexible
    filters such as comparing cdsEnd to cdsStart, extracting minor allele freq
    from snpNNN's comma-sep list column, etc.
    
• src/hg/js/ajax.js
  • lines changed 5, context: html, text, full: html, text
    Added abort method to loadingImage. (for #6152)
• src/hg/js/hgVarAnnogrator.js
  • lines changed 280, context: html, text, full: html, text
    Feature #6152 (Variant Annotation Integrator): Major UI work done in adev branch over the past month.
    1. For new "lite" sections, use CSS instead of 3-level nested tables.
    2. Use classes and CSS properties instead of extra divs just to add
    vertical space.
    3. CGI parses JSON from UI into hierarchical data structures and builds
    contents from those data structures instead of ever-growing arg lists.
    4. Proper use of name instead of id for non-uniquely named elements.
    5. Filter inputs: CGI builds up Javascript object literal vars describing
    available (not yet configured) and active (configured by user) filters.
    Javascript uses the vars to display active filters and offer choices
    when user clicks "Add Filter". New filters configured by user are
    sent back to CGI in querySpec JSON.
    Note: filters aren't yet applied when executing queries! (don't work)
    6. Javascript handles updates to intersectSel elements when there's a new
    primary source. Ajax to CGI still needed for updating which output
    formats are possible given types of inputs.
    7. Better handling of error 500's (give user something to paste so we can
    reproduce, instead of pulling entire err500 HTML page into warnBox).
    8. Make it possible for an annoFilter to be a function on an entire row
    instead of anchored to a single column. This will enable more flexible
    filters such as comparing cdsEnd to cdsStart, extracting minor allele freq
    from snpNNN's comma-sep list column, etc.
    
• src/hg/lib/hui.c
  • lines changed 4, context: html, text, full: html, text
    Bug #8420 (BAM checkbox behavior): Fixed as suggested by Tim, thanks!
• src/hg/makeDb/doc/canFam2.txt
  • lines changed 19, context: html, text, full: html, text
    Track #8279 (canFam2 snp131): added missing doc, thx Greg for noticing it was missing.
• src/inc/annoFilter.h
  • lines changed 18, context: html, text, full: html, text
    Feature #6152 (Variant Annotation Integrator): Major UI work done in adev branch over the past month.
    1. For new "lite" sections, use CSS instead of 3-level nested tables.
    2. Use classes and CSS properties instead of extra divs just to add
    vertical space.
    3. CGI parses JSON from UI into hierarchical data structures and builds
    contents from those data structures instead of ever-growing arg lists.
    4. Proper use of name instead of id for non-uniquely named elements.
    5. Filter inputs: CGI builds up Javascript object literal vars describing
    available (not yet configured) and active (configured by user) filters.
    Javascript uses the vars to display active filters and offer choices
    when user clicks "Add Filter". New filters configured by user are
    sent back to CGI in querySpec JSON.
    Note: filters aren't yet applied when executing queries! (don't work)
    6. Javascript handles updates to intersectSel elements when there's a new
    primary source. Ajax to CGI still needed for updating which output
    formats are possible given types of inputs.
    7. Better handling of error 500's (give user something to paste so we can
    reproduce, instead of pulling entire err500 HTML page into warnBox).
    8. Make it possible for an annoFilter to be a function on an entire row
    instead of anchored to a single column. This will enable more flexible
    filters such as comparing cdsEnd to cdsStart, extracting minor allele freq
    from snpNNN's comma-sep list column, etc.
    
• src/lib/annoFilter.c
  • lines changed 134, context: html, text, full: html, text
    Feature #6152 (Variant Annotation Integrator): Major UI work done in adev branch over the past month.
    1. For new "lite" sections, use CSS instead of 3-level nested tables.
    2. Use classes and CSS properties instead of extra divs just to add
    vertical space.
    3. CGI parses JSON from UI into hierarchical data structures and builds
    contents from those data structures instead of ever-growing arg lists.
    4. Proper use of name instead of id for non-uniquely named elements.
    5. Filter inputs: CGI builds up Javascript object literal vars describing
    available (not yet configured) and active (configured by user) filters.
    Javascript uses the vars to display active filters and offer choices
    when user clicks "Add Filter". New filters configured by user are
    sent back to CGI in querySpec JSON.
    Note: filters aren't yet applied when executing queries! (don't work)
    6. Javascript handles updates to intersectSel elements when there's a new
    primary source. Ajax to CGI still needed for updating which output
    formats are possible given types of inputs.
    7. Better handling of error 500's (give user something to paste so we can
    reproduce, instead of pulling entire err500 HTML page into warnBox).
    8. Make it possible for an annoFilter to be a function on an entire row
    instead of anchored to a single column. This will enable more flexible
    filters such as comparing cdsEnd to cdsStart, extracting minor allele freq
    from snpNNN's comma-sep list column, etc.