All File Changes

v241_base to v242_preview (2010-09-28 to 2010-10-05) v242

• src/hg/blastToPsl/blastToPsl.c
  • lines changed 5, context: html, text, full: html, text
    added options to specify how to obtained qName and tName. Output query and target defs in score file
• src/hg/blastToPsl/blastXmlToPsl.c
  • lines changed 6, context: html, text, full: html, text
    special case handling of target ids for psiBlast
  • lines changed 130, context: html, text, full: html, text
    added options to specify how to obtained qName and tName. Output query and target defs in score file
• src/hg/blastToPsl/pslBuild.c
  • lines changed 31, context: html, text, full: html, text
    added options to specify how to obtained qName and tName. Output query and target defs in score file
• src/hg/blastToPsl/pslBuild.h
  • lines changed 10, context: html, text, full: html, text
    added options to specify how to obtained qName and tName. Output query and target defs in score file
• src/hg/blastToPsl/tests/expected/mrna1Test.bscores
  • lines changed 13, context: html, text, full: html, text
    added options to specify how to obtained qName and tName. Output query and target defs in score file
• src/hg/blastToPsl/tests/expected/prot1Test.bscores
  • lines changed 73, context: html, text, full: html, text
    added options to specify how to obtained qName and tName. Output query and target defs in score file
• src/hg/blastToPsl/tests/expected/prot2Test.bscores
  • lines changed 4, context: html, text, full: html, text
    added options to specify how to obtained qName and tName. Output query and target defs in score file
• src/hg/blastToPsl/tests/expected/qtName1Test.psl
  • lines changed 4, context: html, text, full: html, text
    added options to specify how to obtained qName and tName. Output query and target defs in score file
• src/hg/blastToPsl/tests/expected/qtName2Test.psl
  • lines changed 4, context: html, text, full: html, text
    added options to specify how to obtained qName and tName. Output query and target defs in score file
• src/hg/blastToPsl/tests/expected/sp1PsiBlastTest.psl
  • lines changed 4, context: html, text, full: html, text
    special case handling of target ids for psiBlast
• src/hg/blastToPsl/tests/input/sp1.psiBlast.xml
  • lines changed 258, context: html, text, full: html, text
    special case handling of target ids for psiBlast
• src/hg/blastToPsl/tests/makefile
  • lines changed 9, context: html, text, full: html, text
    special case handling of target ids for psiBlast
  • lines changed 13, context: html, text, full: html, text
    added options to specify how to obtained qName and tName. Output query and target defs in score file
• src/hg/das/das.c
  • lines changed 68, context: html, text, full: html, text
    added headers to allow access to das from javascript browsers, fixed a code crash
• src/hg/das/tests/dasXmlValidate
  • lines changed 0, context: html, text, full: html, text
    added headers to allow access to das from javascript browsers, fixed a code crash
  • lines changed 62, context: html, text, full: html, text
    added headers to allow access to das from javascript browsers, fixed a code crash
• src/hg/das/tests/makefile
  • lines changed 7, context: html, text, full: html, text
    added headers to allow access to das from javascript browsers, fixed a code crash
• src/hg/encode/encodeValidate/config/cv.ra
  • lines changed 18, context: html, text, full: html, text
    Updated Mouse Strain and Age metadata for CH12 and MEL cell lines
  • lines changed 1, context: html, text, full: html, text
    Added comment to descirbe the B10.H-2aH-4bp/Wts is associated with the CH12 cell line
  • lines changed 1, context: html, text, full: html, text
    added AMA50ug
  • lines changed 7, context: html, text, full: html, text
    Updated RnaExtract to be short total from short. Providing more information about meta-data. Also deleted reference to parentTables that have no function
• src/hg/encode/encodeValidate/config/expVars.ra
  • lines changed 5, context: html, text, full: html, text
    Added experiment vars for Cshl Short RNA-seq data
• src/hg/encode/encodeValidate/doEncodeValidate.pl
  • lines changed 23, context: html, text, full: html, text
    Cricket forced me to rework this ugle special case code to be more clear though not necessarily less ugly. Now Yale RNA will display bams.
• src/hg/encode/hgEncodeSubmit/app/controllers/pipeline_controller.rb
  • lines changed 2, context: html, text, full: html, text
    removing unneeded autoResume option from upload since paraFetch does it automatically now
  • lines changed 3, context: html, text, full: html, text
    unfreezing loaded state to allow users to click unload, as requested by Cricket on behalf of Spain
• src/hg/encode/hgEncodeSubmit/app/views/pipeline/show.rhtml
  • lines changed 25, context: html, text, full: html, text
    unfreezing loaded state to allow users to click unload, as requested by Cricket on behalf of Spain
• src/hg/encode/hgEncodeSubmit/app/views/pipeline/upload.rhtml
  • lines changed 5, context: html, text, full: html, text
    removing unneeded autoResume option from upload since paraFetch does it automatically now
• src/hg/encode/hgEncodeSubmit/config/paraFetch.yml.sample
  • lines changed 11, context: html, text, full: html, text
    adding configurable site-specific limits for running paraFetch
• src/hg/encode/hgEncodeSubmit/lib/pipeline_background.rb
  • lines changed 5, context: html, text, full: html, text
    needed quotes around echo string because of brackets
  • lines changed 15, context: html, text, full: html, text
    properly handling killing all descendants of the child that has timed out
  • lines changed 39, context: html, text, full: html, text
    adding configurable site-specific limits for running paraFetch
  • lines changed 1, context: html, text, full: html, text
    removing unneeded autoResume option from upload since paraFetch does it automatically now
• src/hg/encode/hgEncodeSubmit/pipeline_runner.rb
  • lines changed 40, context: html, text, full: html, text
    adding configurable site-specific limits for running paraFetch
  • lines changed 3, context: html, text, full: html, text
    oops there are quotes around the url argument
  • lines changed 2, context: html, text, full: html, text
    fixing parse logic - ruby strings not like python slices
• src/hg/encode/metaCollect/makefile
  • lines changed 18, context: html, text, full: html, text
    a utility to collect together datasets based on their metadata
• src/hg/encode/metaCollect/metaCollect.c
  • lines changed 281, context: html, text, full: html, text
    a utility to collect together datasets based on their metadata
• src/hg/encode/metaRename/makefile
  • lines changed 18, context: html, text, full: html, text
    first pass
• src/hg/encode/metaRename/metaRename.c
  • lines changed 183, context: html, text, full: html, text
    first pass
  • lines changed 197, context: html, text, full: html, text
    closer to working
• src/hg/hgTables/great.c
  • lines changed 1, context: html, text, full: html, text
    fix compiler warning
  • lines changed 1, context: html, text, full: html, text
    Revert "fix compiler warning" This reverts commit 8670dfac348cdfd889f2124823e14927a1f5ddc2. Angie had already fixed it.
• src/hg/hgTables/schema.c
  • lines changed 52, context: html, text, full: html, text
    Edits based on code review, and fix for pgSnp custom tracks
• src/hg/hgTrackUi/hgTrackUi.c
  • lines changed 1, context: html, text, full: html, text
    Added definition of multiTrack and changed container to be either multiTrack or Composite. This allows multiTracks (such as multiWigs) to behave as composites in some code paths.
  • lines changed 3, context: html, text, full: html, text
    Support for triggering superTrack reshaping when superTrackChild is made visible
• src/hg/hgTracks/.old
  • lines changed 0, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
• src/hg/hgTracks/config.c.priority
  • lines changed 516, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 516, context: html, text, full: html, text
    Fixing more git mess
• src/hg/hgTracks/hgRenderTracks
  • lines changed 0, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 0, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/hgTracks.c
  • lines changed 6, context: html, text, full: html, text
    Added definition of multiTrack and changed container to be either multiTrack or Composite. This allows multiTracks (such as multiWigs) to behave as composites in some code paths.
  • lines changed 17, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 9, context: html, text, full: html, text
    SuperTracks can now be found in simple search too.
  • lines changed 2, context: html, text, full: html, text
    Not enjoying unhappy news, I am making all containers be supject to reshaping in hgTracks
• src/hg/hgTracks/hgTracks.c.fxit
  • lines changed 5631, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 5631, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/hgTracks.c.old
  • lines changed 5646, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 5646, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/hgTracks.c.old2
  • lines changed 5751, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 5751, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/hgTracks.c.priority
  • lines changed 5722, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 5722, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/hgTracks.h
  • lines changed 10, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
• src/hg/hgTracks/hgTracks.h.priority
  • lines changed 1221, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 1221, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/hgTracks.patch
  • lines changed 131, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 131, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/imageV2.c
  • lines changed 4, context: html, text, full: html, text
    Added definition of multiTrack and changed container to be either multiTrack or Composite. This allows multiTracks (such as multiWigs) to behave as composites in some code paths.
  • lines changed 62, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
• src/hg/hgTracks/imageV2.c.fxit
  • lines changed 1742, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 1742, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/imageV2.c.old
  • lines changed 1792, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 1792, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/imageV2.h.fxit
  • lines changed 341, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 341, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/mainMain.c.fxit
  • lines changed 79, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 79, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/searchTracks.c
  • lines changed 35, context: html, text, full: html, text
    Added definition of multiTrack and changed container to be either multiTrack or Composite. This allows multiTracks (such as multiWigs) to behave as composites in some code paths.
  • lines changed 18, context: html, text, full: html, text
    remove trackMetadata code (hash wasn't being used any more)
  • lines changed 118, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 15, context: html, text, full: html, text
    SuperTracks can now be found in simple search too.
  • lines changed 2, context: html, text, full: html, text
    Fix for 'View in Browser' button didn't work because jquery selectors :hidden and :enabled appear to be incompatible
  • lines changed 2, context: html, text, full: html, text
    Stop a linker error
• src/hg/hgTracks/searchTracks.c.fxit
  • lines changed 861, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 861, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/searchTracks.c.old
  • lines changed 779, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 779, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/simpleTracks.c
  • lines changed 1, context: html, text, full: html, text
    Added definition of multiTrack and changed container to be either multiTrack or Composite. This allows multiTracks (such as multiWigs) to behave as composites in some code paths.
  • lines changed 89, context: html, text, full: html, text
    Edits based on code review, and fix for pgSnp custom tracks
• src/hg/hgTracks/simpleTracks.c.diff
  • lines changed 9, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 9, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/tmp.txt
  • lines changed 53, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 53, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/tmp2.txt
  • lines changed 47, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 47, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/hgTracks/wigMafTrack.c.old
  • lines changed 2530, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 2530, context: html, text, full: html, text
    Fixing git mess (I hope) created from an accidental 'git add .'
• src/hg/htdocs/FAQ/FAQformat.html
  • lines changed 2, context: html, text, full: html, text
    updated GFF link at Belinda's suggestion.
  • lines changed 6, context: html, text, full: html, text
    Oops -- commented out mod from Belinda that's not ready for primetime yet.
• src/hg/htdocs/goldenPath/pubs.html
  • lines changed 21, context: html, text, full: html, text
    Added 2 pubs from Ting.
• src/hg/inc/hui.h
  • lines changed 9, context: html, text, full: html, text
    Added 'extra' for javascript calls to a couple of html drop downs
• src/hg/inc/jksql.h
  • lines changed 4, context: html, text, full: html, text
    Port and socket support for db profiles.
• src/hg/inc/trackDb.h
  • lines changed 116, context: html, text, full: html, text
    Added definition of multiTrack and changed container to be either multiTrack or Composite. This allows multiTracks (such as multiWigs) to behave as composites in some code paths.
• src/hg/js/hgTracks.js
  • lines changed 1, context: html, text, full: html, text
    add tooltip to metadata help links
  • lines changed 15, context: html, text, full: html, text
    FindTracks now finds superTracks (Advanced only) and hgTrackUi now does superTrack reshaping when children have vis changed
  • lines changed 33, context: html, text, full: html, text
    Katrina wants 'View in Browser' button to reflect user's changes rather than whether tracks are checked or not.
  • lines changed 6, context: html, text, full: html, text
    Fix for 'View in Browser' button didn't work because jquery selectors :hidden and :enabled appear to be incompatible
• src/hg/js/hui.js
  • lines changed 13, context: html, text, full: html, text
    Support for triggering superTrack reshaping when superTrackChild is made visible
• src/hg/js/utils.js
  • lines changed 24, context: html, text, full: html, text
    Support for triggering superTrack reshaping when superTrackChild is made visible
• src/hg/lib/cart.c
  • lines changed 156, context: html, text, full: html, text
    Extended composite shaping to shape multiTracks as well. There are some differences, though.
• src/hg/lib/hdb.c
  • lines changed 3, context: html, text, full: html, text
    Added definition of multiTrack and changed container to be either multiTrack or Composite. This allows multiTracks (such as multiWigs) to behave as composites in some code paths.
• src/hg/lib/hui.c
  • lines changed 1, context: html, text, full: html, text
    Added definition of multiTrack and changed container to be either multiTrack or Composite. This allows multiTracks (such as multiWigs) to behave as composites in some code paths.
  • lines changed 9, context: html, text, full: html, text
    subtracks without explicit (cart) vis but are selected, should get inherited vis
  • lines changed 25, context: html, text, full: html, text
    Added 'extra' for javascript calls to a couple of html drop downs
• src/hg/lib/jksql.c
  • lines changed 37, context: html, text, full: html, text
    Port and socket support for db profiles.
  • lines changed 1, context: html, text, full: html, text
    sqlGetResultExt should return errors on failure. (Rather than on success).
• src/hg/lib/mdb.c
  • lines changed 5, context: html, text, full: html, text
    use case-insensitive sort in mdbValSearch
  • lines changed 1, context: html, text, full: html, text
    Fixed the sort order of right side dropDowns in findTracks
• src/hg/lib/pgSnp.c
  • lines changed 3, context: html, text, full: html, text
    Edits based on code review, and fix for pgSnp custom tracks
• src/hg/lib/trackDbCustom.c
  • lines changed 15, context: html, text, full: html, text
    Added definition of multiTrack and changed container to be either multiTrack or Composite. This allows multiTracks (such as multiWigs) to behave as composites in some code paths.
• src/hg/makeDb/doc/bruMal1.txt
  • lines changed 57, context: html, text, full: html, text
    done with genbank runs
  • lines changed 21, context: html, text, full: html, text
    assign blat servers and set default position to ZC101.2e, genbank all done
• src/hg/makeDb/doc/caeJap3.txt
  • lines changed 67, context: html, text, full: html, text
    done with genbank runs
  • lines changed 19, context: html, text, full: html, text
    assign blat servers and set default position to ZC101.2e, genbank all done
• src/hg/makeDb/doc/ce9.txt
  • lines changed 227, context: html, text, full: html, text
    have phylo tree 4D calculation done and started on phastCons
  • lines changed 83, context: html, text, full: html, text
    now have priPac2 with lastz and rerunning multiz with priPac2
• src/hg/makeDb/doc/haeCon1.txt
  • lines changed 237, context: html, text, full: html, text
    done with genbank runs
  • lines changed 21, context: html, text, full: html, text
    assign blat servers and set default position to ZC101.2e, genbank all done
• src/hg/makeDb/doc/hg19.txt
  • lines changed 22, context: html, text, full: html, text
    Done affy U133Plus2
• src/hg/makeDb/doc/melHap1.txt
  • lines changed 66, context: html, text, full: html, text
    done with genbank runs
  • lines changed 20, context: html, text, full: html, text
    assign blat servers and set default position to ZC101.2e, genbank all done
• src/hg/makeDb/doc/melInc1.txt
  • lines changed 58, context: html, text, full: html, text
    done with genbank runs
  • lines changed 21, context: html, text, full: html, text
    assign blat servers and set default position to ZC101.2e, genbank all done
• src/hg/makeDb/doc/priPac2.txt
  • lines changed 203, context: html, text, full: html, text
    initial build and thru masking
  • lines changed 18, context: html, text, full: html, text
    assign blat servers and set default position to ZC101.2e
• src/hg/makeDb/genbank/etc/align.dbs
  • lines changed 5, context: html, text, full: html, text
    adding bruMal1 caeJap3 haeCon1 melInc1 and melHap1
• src/hg/makeDb/genbank/etc/hgwdev.dbs
  • lines changed 5, context: html, text, full: html, text
    adding bruMal1 caeJap3 haeCon1 melInc1 and melHap1
• src/hg/makeDb/trackDb/cactus/cacTus2/description.html
  • lines changed 129, context: html, text, full: html, text
    Initial descriptions for cacTus2.
• src/hg/makeDb/trackDb/cactus/cacTus2/gap.html
  • lines changed 37, context: html, text, full: html, text
    Initial descriptions for cacTus2.
• src/hg/makeDb/trackDb/cactus/cacTus2/gold.html
  • lines changed 29, context: html, text, full: html, text
    Initial descriptions for cacTus2.
• src/hg/makeDb/trackDb/cactus/cacTus2/trackDb.ra
  • lines changed 8, context: html, text, full: html, text
    Initial descriptions for cacTus2.
  • lines changed 18, context: html, text, full: html, text
    add the bed and maf tracks
• src/hg/makeDb/trackDb/human/hg18/metaDb/alpha/wgEncodeCshlShortRnaSeq.ra
  • lines changed 48, context: html, text, full: html, text
    Updated dataType i.e Assay from ShortRnaSeq to RnaSeq to be consistent
  • lines changed 58, context: html, text, full: html, text
    Updated RnaExtract to be short total from short. Providing more information about meta-data. Also deleted reference to parentTables that have no function
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeCshlLongRnaSeq.ra
  • lines changed 8185, context: html, text, full: html, text
    added lots and lots of tracks
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeHaibTfbs.ra
  • lines changed 682, context: html, text, full: html, text
    Added 7 submissions in trackDb and metaDb
• src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeRikenCage.ra
  • lines changed 142, context: html, text, full: html, text
    removing crufty files
  • lines changed 47, context: html, text, full: html, text
    added file index where missing
  • lines changed 6, context: html, text, full: html, text
    changed the 6 bedgraphs to bigWigs
  • lines changed 1, context: html, text, full: html, text
    changed the 6 bedgraphs to bigWigs
  • lines changed 0, context: html, text, full: html, text
    more metaData cleanup
• src/hg/makeDb/trackDb/human/hg19/metaDb/beta/makefile
  • lines changed 1, context: html, text, full: html, text
    staging ENCODE CSHL Sm RNA-seq metadata on beta
  • lines changed 1, context: html, text, full: html, text
    removing duplicate of wgEncodeMapability.ra that I accidentally added
• src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncodeCshlLongRnaSeq.ra
  • lines changed 2738, context: html, text, full: html, text
    added lots and lots of tracks
• src/hg/makeDb/trackDb/human/hg19/wgEncodeCshlShortRnaSeq.html
  • lines changed 1, context: html, text, full: html, text
    removing Alignment color and score info; was correct in hg18, but in hg19 BAM file format is used and coloring/scoring is different
• src/hg/makeDb/trackDb/human/hg19/wgEncodeCshlShortRnaSeq.ra
  • lines changed 1, context: html, text, full: html, text
    fixing typo; should be 1 million rather than 10 million
  • lines changed 44, context: html, text, full: html, text
    removing release alphas; staging on beta; not necessary because this is a first release
  • lines changed 1, context: html, text, full: html, text
    turned autoscale on Minus Raw Signal because that is what lab requested
  • lines changed 6, context: html, text, full: html, text
    added Tier 1 labels, removed limits in bigWigs, fixed order in matrix
• src/hg/makeDb/trackDb/human/hg19/wgEncodeHaibTfbs.ra
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    Added 7 submissions in trackDb and metaDb
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.html
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    Updated track labels and descriptions to comply with changes addressed by Lab
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromChip.ra
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    Updated track labels and descriptions to comply with changes addressed by Lab
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.html
  • lines changed 25, context: html, text, full: html, text
    Updated track labels and descriptions to comply with changes addressed by Lab
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromDnase.ra
  • lines changed 205, context: html, text, full: html, text
    Updated track labels and descriptions to comply with changes addressed by Lab
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromFaire.html
  • lines changed 22, context: html, text, full: html, text
    Updated track labels and descriptions to comply with changes addressed by Lab
• src/hg/makeDb/trackDb/human/hg19/wgEncodeOpenChromFaire.ra
  • lines changed 121, context: html, text, full: html, text
    Updated track labels and descriptions to comply with changes addressed by Lab
• src/hg/makeDb/trackDb/human/hg19/wgEncodeRikenCage.ra
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    changed the 6 bedgraphs to bigWigs
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDgf.html
  • lines changed 1, context: html, text, full: html, text
    Removed the tag that this was a preliminary track description
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwDnase.html
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    Removed the tag that this was a preliminary track description
• src/hg/makeDb/trackDb/human/hg19/wgEncodeUwHistone.html
  • lines changed 1, context: html, text, full: html, text
    Removed the tag that this was a preliminary track description
• src/hg/makeDb/trackDb/makefile
  • lines changed 1, context: html, text, full: html, text
    adding priPac2 to the build
  • lines changed 1, context: html, text, full: html, text
    Added cacTus2 to DBS.
• src/hg/makeDb/trackDb/marmoset/calJac3/cons13way.html
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    description page
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    change link for tree modal
• src/hg/makeDb/trackDb/marmoset/calJac3/trackDb.ra
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    description page
• src/hg/makeDb/trackDb/mouse/mm9/cons30way.html
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    Changed glires -> euarchontoglires, punctuation changes, fixed a link, removed sentenct referring to vertebrate and placental mammals but not euarchontoglires.
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/makefile
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    Updated make file to include .ra for LICR Histone metadata
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrHistone.ra
  • lines changed 101, context: html, text, full: html, text
    Added metaData for submission 2205
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeSydhHistone.ra
  • lines changed 49, context: html, text, full: html, text
    Updated Mouse Strain and Age metadata for CH12 and MEL cell lines
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeSydhTfbs.ra
  • lines changed 295, context: html, text, full: html, text
    Updated Mouse Strain and Age metadata for CH12 and MEL cell lines
• src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeUwDnase.ra
  • lines changed 31, context: html, text, full: html, text
    Updated Mouse Strain and Age metadata for CH12 and MEL cell lines
• src/hg/makeDb/trackDb/mouse/mm9/wgEncodeUwDnase.ra
  • lines changed 12, context: html, text, full: html, text
    Updated Mouse Strain and Age metadata for CH12 and MEL cell lines
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    Fixed typo in checked strains.
• src/hg/makeDb/trackDb/worm/priPac2/description.html
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    initial files from makeGenomeDb.pl
• src/hg/makeDb/trackDb/worm/priPac2/gap.html
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    initial files from makeGenomeDb.pl
• src/hg/makeDb/trackDb/worm/priPac2/gold.html
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    initial files from makeGenomeDb.pl
• src/hg/makeDb/trackDb/worm/priPac2/trackDb.ra
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    initial files from makeGenomeDb.pl
• src/hg/utils/automation/makeGenomeDb.pl
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    a couple of fixed typos
• src/hg/utils/makeTrackIndex/makeTrackIndex.c
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    Index should include superTracks
• src/product/README.building.source
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    add notes about usr local apache symlinks for convenience
• src/utils/qa/weeklybld/buildEnv.csh
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    v242 preview

• lines changed: 83036
• files changed: 192