CVS changes by file

review to branch (2010-04-13 to 2010-04-19) v229

• src/hg/archaeStuff/chooseorg/chooseorg.c
  • 1.3 lines changed: 3, context: html, text, full: html, text
    remove hardcoding of centraldb database name
  • 1.2 lines changed: 32, context: html, text, full: html, text
    fixed problem by Andrew H.
• src/hg/archaeStuff/data/Genome-info-euk
  • 1.20 lines changed: 12, context: html, text, full: html, text
    add zebrafish v7
• src/hg/archaeStuff/data/Genome-info-mods
  • 1.99 lines changed: 295, context: html, text, full: html, text
    new archaeal genomes added by Andrew H.; remove old Geobacter genomes and replace with new ones
• src/hg/archaeStuff/scripts/archaeBrowser/CDS.pm
  • 1.28 lines changed: 11, context: html, text, full: html, text
    fixed kegg data retrieval by Andrew H.
• src/hg/archaeStuff/scripts/archaeBrowser/OrganismDb.pm
  • 1.54 lines changed: 205, context: html, text, full: html, text
    add resetorder, synctable, and synctrackfile options
• src/hg/archaeStuff/scripts/archaeBrowser/ncRNA.pm
  • 1.28 lines changed: 11, context: html, text, full: html, text
    do not write gtrnadb urls if not exist
• src/hg/archaeStuff/scripts/make-browser-2.0
  • 1.55 lines changed: 32, context: html, text, full: html, text
    add resetorder, synctable, and synctrackfile options
• src/hg/blastToPsl/blastXmlToPsl.c
  • 1.2 lines changed: 9, context: html, text, full: html, text
    add options to convert TBLASTN to codon nucleotide/nucleotide coordinates, fixed bug with tStart/tEnd extending beyond actual range
• src/hg/blastToPsl/pslBuild.c
  • 1.2 lines changed: 43, context: html, text, full: html, text
    add options to convert TBLASTN to codon nucleotide/nucleotide coordinates, fixed bug with tStart/tEnd extending beyond actual range
• src/hg/blastToPsl/pslBuild.h
  • 1.2 lines changed: 8, context: html, text, full: html, text
    add options to convert TBLASTN to codon nucleotide/nucleotide coordinates, fixed bug with tStart/tEnd extending beyond actual range
• src/hg/blastToPsl/scoreSort.c
  • 1.7 lines changed: 132, context: html, text, full: html, text
    add options to convert TBLASTN to codon nucleotide/nucleotide coordinates, fixed bug with tStart/tEnd extending beyond actual range
• src/hg/blastToPsl/tests/expected/prot1NucCoordTest.psl
  • 1.1 lines changed: 72, context: html, text, full: html, text
    add options to convert TBLASTN to codon nucleotide/nucleotide coordinates, fixed bug with tStart/tEnd extending beyond actual range
• src/hg/blastToPsl/tests/makefile
  • 1.25 lines changed: 52, context: html, text, full: html, text
    add options to convert TBLASTN to codon nucleotide/nucleotide coordinates, fixed bug with tStart/tEnd extending beyond actual range
• src/hg/encode/encodeDownloadsPage/encodeDownloadsPage.pl
  • 1.34 lines changed: 4, context: html, text, full: html, text
    Stripping quotes out of mdb means adding them in here
  • 1.33 lines changed: 13, context: html, text, full: html, text
    Renamed metaTbl to 'mdb'.
• src/hg/encode/encodeMkGeoPkg/encodeMkGeoPkg
  • 1.2 lines changed: 57, context: html, text, full: html, text
    more progress
  • 1.1 lines changed: 40, context: html, text, full: html, text
    program to make package to send to GEO
• src/hg/encode/encodeValidate/config/cv.ra
  • 1.229 lines changed: 1, context: html, text, full: html, text
    make H1-hESC into male. Poof!
  • 1.228 lines changed: 4, context: html, text, full: html, text
    Added a displayName entry for the cases where there are two or more entities of the same class, and the term field (which has to be unique) cannot represent both entities accurately.
  • 1.227 lines changed: 25, context: html, text, full: html, text
    Added antibody H3K9acB
• src/hg/encode/encodeValidate/doReport.csh
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Fix cleanup
• src/hg/hgGene/microarray.c
  • 1.18 lines changed: 1, context: html, text, full: html, text
    RT #1632: On the hgGene page, when the user edits the "Microarray Expression Data" to switch it from displaying red/green to displaying yellow-blue and presses the submit button, the page should redraw and remain at the "#microarray" anchor. Instead it pops back up to the top of the page. -- should be fixed.
• src/hg/hgTables/gffOut.c
  • 1.22 lines changed: 2, context: html, text, full: html, text
    forgot to use parameter that was added to get either GTF or GTF (per Hiram)
• src/hg/hgTracks/hgTracks.c
  • 1.1644 lines changed: 3, context: html, text, full: html, text
    Removed some debugging.
  • 1.1643 lines changed: 3, context: html, text, full: html, text
    no blue nav bar for susScr2
  • 1.1642 lines changed: 0, context: html, text, full: html, text
    Some work getting makeItems tracks to display better in dense and full mode.
• src/hg/hgTracks/makeItemsTrack.c
  • 1.10 lines changed: 2, context: html, text, full: html, text
    Fixing extra pack-mode labels.
  • 1.9 lines changed: 49, context: html, text, full: html, text
    Some work getting makeItems tracks to display better in dense and full mode.
• src/hg/hgTracks/simpleTracks.c
  • 1.134 lines changed: 1, context: html, text, full: html, text
    Registering snp131.
• src/hg/hgTracks/wigTrack.c
  • 1.105 lines changed: 51, context: html, text, full: html, text
    fixup off by one drawing bugs in wiggle graphs
  • 1.104 lines changed: 1, context: html, text, full: html, text
    properly draw line at bottom of graph when data point is right on that line
• src/hg/hgc/hgc.c
  • 1.1613 lines changed: 14, context: html, text, full: html, text
    move LOWELAB code section close to the top of the if statement in doMiddle() to avoid function calling conflicts
  • 1.1612 lines changed: 1, context: html, text, full: html, text
    Renamed metaTbl to 'mdb'.
• src/hg/hgc/lowelab.c
  • 1.49 lines changed: 34, context: html, text, full: html, text
    change code to display tRNA image on detail page
• src/hg/inc/mdb.h
  • 1.1 lines changed: 293, context: html, text, full: html, text
    Renamed metaTbl to 'mdb' and eliminated objType
• src/hg/inc/trackDb.h
  • 1.56 lines changed: 23, context: html, text, full: html, text
    Removed obsolete old style metadata code
• src/hg/inc/versionInfo.h
  • 1.170 lines changed: 1, context: html, text, full: html, text
    "New version number v229"
• src/hg/instinct/hgHeatmap2/hgHeatmap2.c
  • 1.88 lines changed: 1, context: html, text, full: html, text
    Removed details url since we have hgDetails now
• src/hg/instinct/hgHeatmap2/hgHeatmapData/datasets.su2c.ra
  • 1.2 lines changed: 10, context: html, text, full: html, text
    Added wrangling notes and changed priority so it's top of su2c
• src/hg/instinct/hgHeatmap2/hgHeatmapFrontend/js/hgHeatmap.js
  • 1.86 lines changed: 10, context: html, text, full: html, text
    fixed up feature passing
  • 1.85 lines changed: 32, context: html, text, full: html, text
    THIS IS BROKEN DON'T MAKE
  • 1.84 lines changed: 16, context: html, text, full: html, text
    Tmp code to link to hgMicroscope
• src/hg/instinct/hgMicroscope/microscope/hgMicroscope.c
  • 1.6 lines changed: 2, context: html, text, full: html, text
    Fixed some search functions
  • 1.5 lines changed: 80, context: html, text, full: html, text
    Updated search functions only looks at cancer-pub
• src/hg/instinct/hgMicroscope/microscope/microscopeSearch.c
  • 1.5 lines changed: 8, context: html, text, full: html, text
    Updated search function to include support for mutli-char search (e.g. >=)
  • 1.4 lines changed: 7, context: html, text, full: html, text
    Fixed some search functionality
• src/hg/instinct/hgMicroscope/microscopeLoad/retest
  • 1.2 lines changed: 5, context: html, text, full: html, text
    Removing cruft.
• src/hg/instinct/lib/hgHeatmapLib.c
  • 1.69 lines changed: 1, context: html, text, full: html, text
    Added order by priority on radb lookup
• src/hg/js/jquery.autocomplete.lowe.js
  • 1.1 lines changed: 808, context: html, text, full: html, text
    created by Andrew H. for autocomplete genome box
• src/hg/js/loweautocomplete.js
  • 1.2 lines changed: 2, context: html, text, full: html, text
    fixed tooltip problem by Andrew H.
• src/hg/js/lowetooltip.js
  • 1.4 lines changed: 263, context: html, text, full: html, text
    fixed tooltip problem by Andrew H.
• src/hg/lib/cart.c
  • 1.118 lines changed: 3, context: html, text, full: html, text
    Adding support for http(s) proxy
• src/hg/lib/hui.c
  • 1.275 lines changed: 14, context: html, text, full: html, text
    The metaTbl is now the 'mdb'.
• src/hg/lib/makefile
  • 1.407 lines changed: 1, context: html, text, full: html, text
    Renamed metaTbl to 'mdb' and eliminated objType.
• src/hg/lib/mdb.as
  • 1.1 lines changed: 8, context: html, text, full: html, text
    The metaTbl has been renamed 'mdb' and objType has been dropped.
• src/hg/lib/mdb.c
  • 1.3 lines changed: 1, context: html, text, full: html, text
    Fixed ra file indenting.
  • 1.2 lines changed: 2, context: html, text, full: html, text
    Strip enclosing quotes before updating a val
  • 1.1 lines changed: 1867, context: html, text, full: html, text
    The metaTbl has been renamed 'mdb' and objType has been dropped.
• src/hg/lib/mdb.sql
  • 1.1 lines changed: 18, context: html, text, full: html, text
    The metaTbl has been renamed 'mdb' and objType has been dropped.
• src/hg/lib/metaTbl.c
  • 1.12 lines changed: 8, context: html, text, full: html, text
    Fixed bug in formatted metadata lines requesting a delete
• src/hg/lib/trackDbCustom.c
  • 1.84 lines changed: 86, context: html, text, full: html, text
    Removed obsolete old style metadata code
  • 1.83 lines changed: 1, context: html, text, full: html, text
    Adding makeItems to packable types.
• src/hg/makeDb/doc/ailMel1.txt
  • 1.13 lines changed: 26, context: html, text, full: html, text
    added Human Proteins
  • 1.12 lines changed: 26, context: html, text, full: html, text
    oops added tscan by mistake
  • 1.11 lines changed: 189, context: html, text, full: html, text
    starting Human Proteins
  • 1.10 lines changed: 58, context: html, text, full: html, text
    add swap mention for human, dog, rat
• src/hg/makeDb/doc/ce6.txt
  • 1.19 lines changed: 15, context: html, text, full: html, text
    CE6->CE4 LIFTOVER
• src/hg/makeDb/doc/encodeDccHg18/wgEncodeDukeAffyExonArray.release1.notes.txt
  • 1.1 lines changed: 160, context: html, text, full: html, text
    release1 notes
• src/hg/makeDb/doc/encodeDccHg18/wgEncodeGisDnaPet.release1.notes.txt
  • 1.3 lines changed: 22, context: html, text, full: html, text
    get the number of tables correct
• src/hg/makeDb/doc/encodeHg19.txt
  • 1.2 lines changed: 1, context: html, text, full: html, text
    corrected typo.
• src/hg/makeDb/doc/felCat3.txt
  • 1.57 lines changed: 1, context: html, text, full: html, text
    Finished felCat3 to felCatV17e liftOver
• src/hg/makeDb/doc/hg19.txt
  • 1.101 lines changed: 158, context: html, text, full: html, text
    Added snp131OrthoPt2Pa2Rm2 (mappings to other primate reference assemblies).
  • 1.100 lines changed: 441, context: html, text, full: html, text
    Added alternate haplotype contigs to ctgPos. Built snp131.
• src/hg/makeDb/doc/oviAri1.txt
  • 1.3 lines changed: 69, context: html, text, full: html, text
    re-do the genbank task
• src/hg/makeDb/doc/susScr2.txt
  • 1.8 lines changed: 26, context: html, text, full: html, text
    add N-SCAN to susScr2
  • 1.7 lines changed: 27, context: html, text, full: html, text
    finished Human Proteins
  • 1.6 lines changed: 165, context: html, text, full: html, text
    starting human proteins
• src/hg/makeDb/genbank/etc/align.dbs
  • 1.119 lines changed: 1, context: html, text, full: html, text
    Added oviAri1 - Sheep
  • 1.118 lines changed: 2, context: html, text, full: html, text
    reenabled chimp alignments
• src/hg/makeDb/genbank/etc/hgwbeta.dbs
  • 1.111 lines changed: 1, context: html, text, full: html, text
    adding oryCun2
  • 1.110 lines changed: 1, context: html, text, full: html, text
    added calJac3 for genbank updates
• src/hg/makeDb/genbank/etc/hgwdev.dbs
  • 1.123 lines changed: 1, context: html, text, full: html, text
    Added oviAri1 - Sheep
  • 1.122 lines changed: 2, context: html, text, full: html, text
    reenabled chimp alignments
• src/hg/makeDb/genbank/etc/rr.dbs
  • 1.90 lines changed: 1, context: html, text, full: html, text
    genbank updates for panda
• src/hg/makeDb/hgCgiData/Human/microarrayGroups.ra
  • 1.103 lines changed: 4, context: html, text, full: html, text
    Removed conflict markers
• src/hg/makeDb/mdbUpdate/makefile
  • 1.1 lines changed: 31, context: html, text, full: html, text
    Renamed metaTbl to 'mdb' and eliminated objType.
• src/hg/makeDb/mdbUpdate/mdbPrint.c
  • 1.1 lines changed: 204, context: html, text, full: html, text
    Renamed metaTbl to 'mdb' and eliminated objType.
• src/hg/makeDb/mdbUpdate/mdbUpdate.c
  • 1.2 lines changed: 1, context: html, text, full: html, text
    Fix errAbort with too many params
  • 1.1 lines changed: 291, context: html, text, full: html, text
    Renamed metaTbl to 'mdb' and eliminated objType.
• src/hg/makeDb/schema/all.joiner
  • 1.789 lines changed: 2, context: html, text, full: html, text
    add Human Proteins to ailMel1
  • 1.788 lines changed: 4, context: html, text, full: html, text
    add ctgPos2 and intronEst to the tablesIgnored list
  • 1.787 lines changed: 7, context: html, text, full: html, text
    Add Sheep oviAri1 support
• src/hg/makeDb/trackDb/human/hg18/mdbBroad.ra
  • 1.2 lines changed: 8968, context: html, text, full: html, text
    Fixed ra indenting and quatation marks
  • 1.1 lines changed: 10066, context: html, text, full: html, text
    Initial checkin of mdb style metadata for Broad Histone
• src/hg/makeDb/trackDb/human/hg18/mdbHaibTfbs.ra
  • 1.2 lines changed: 9297, context: html, text, full: html, text
    Fixed indent and quotations
  • 1.1 lines changed: 10291, context: html, text, full: html, text
    These 3 have been moved from metaTbl to 'mdb'.
• src/hg/makeDb/trackDb/human/hg18/mdbOpenChrom.ra
  • 1.2 lines changed: 10044, context: html, text, full: html, text
    Fixed indenting and quotations
  • 1.1 lines changed: 11274, context: html, text, full: html, text
    These 3 have been moved from metaTbl to 'mdb'.
• src/hg/makeDb/trackDb/human/hg18/mdbYaleTfbs.ra
  • 1.3 lines changed: 19462, context: html, text, full: html, text
    Fix ra file indenting
  • 1.2 lines changed: 1819, context: html, text, full: html, text
    Fixed one lab that was YaUCDle and stripped out quotes
  • 1.1 lines changed: 21609, context: html, text, full: html, text
    These 3 have been moved from metaTbl to 'mdb'.
• src/hg/makeDb/trackDb/human/hg18/metaBroad.ra
  • 1.2 lines changed: 3094, context: html, text, full: html, text
    Removing as part of rename from metaTbl to mdb
• src/hg/makeDb/trackDb/human/hg18/metaOpenChrom.ra
  • 1.2 lines changed: 11274, context: html, text, full: html, text
    Removing as part of rename from metaTbl to mdb
• src/hg/makeDb/trackDb/human/hg18/metaYaleTfbs.ra
  • 1.2 lines changed: 21609, context: html, text, full: html, text
    Removing as part of rename from metaTbl to mdb
• src/hg/makeDb/trackDb/human/hg18/pgSnpHgwdev.html
  • 1.4 lines changed: 33, context: html, text, full: html, text
    updated 1000 genomes data
• src/hg/makeDb/trackDb/human/hg18/trackDb.wgEncode.ra
  • 1.954 lines changed: 1, context: html, text, full: html, text
    fix parentage of subTrack in GIS DNA
  • 1.953 lines changed: 1, context: html, text, full: html, text
    add replicate to sortOrder for GIS RnaSeq
  • 1.952 lines changed: 4, context: html, text, full: html, text
    just have a couple of the GIS DNA tracks on by default
  • 1.951 lines changed: 19, context: html, text, full: html, text
    removed alphas from the ENCODE GIS RNA-Seq track to stage on hgwbeta
  • 1.950 lines changed: 2, context: html, text, full: html, text
    changed long and short labels for GIS DNA PET
  • 1.949 lines changed: 41, context: html, text, full: html, text
    fix GisDnaPet to have the fragment sizes in numerical rather than alphabetical order
  • 1.948 lines changed: 28, context: html, text, full: html, text
    More Yale Short labels for Katrina
  • 1.947 lines changed: 6, context: html, text, full: html, text
    add colors to cell types for GisDna
  • 1.946 lines changed: 6, context: html, text, full: html, text
    removed alphas for this track; staging on beta
• src/hg/makeDb/trackDb/human/hg18/wgEncodeCaltechRnaSeq.alpha.ra
  • 1.7 lines changed: 1, context: html, text, full: html, text
    fix a long label
  • 1.6 lines changed: 1, context: html, text, full: html, text
    fix a long label
  • 1.5 lines changed: 57, context: html, text, full: html, text
    make short labels unique
  • 1.4 lines changed: 138, context: html, text, full: html, text
    make long labels unique and less than 80 chars
• src/hg/makeDb/trackDb/human/hg18/wgEncodeDukeAffyExonArray.html
  • 1.3 lines changed: 7, context: html, text, full: html, text
    Added Terry Furey's email address
  • 1.2 lines changed: 4, context: html, text, full: html, text
    Cleaned up the HTML to make it nice and pretty...
  • 1.1 lines changed: 65, context: html, text, full: html, text
    Renamed html file for the Duke Affy Exon array. Added text from Terry Furey.
• src/hg/makeDb/trackDb/human/hg18/wgEncodeGisDnaPet.html
  • 1.8 lines changed: 1, context: html, text, full: html, text
    typo
  • 1.7 lines changed: 14, context: html, text, full: html, text
    first pass at this release one description page
• src/hg/makeDb/trackDb/human/hg18/wgEncodeGisPet.alpha.ra
  • 1.12 lines changed: 43, context: html, text, full: html, text
    set new default visibilities
  • 1.11 lines changed: 0, context: html, text, full: html, text
    change tabs to 8 spaces
  • 1.10 lines changed: 6, context: html, text, full: html, text
    more metadata and short label fixups. Will I ever be through?
  • 1.9 lines changed: 6, context: html, text, full: html, text
    change type=wig to type=bedGraph
  • 1.8 lines changed: 4, context: html, text, full: html, text
    more labels
  • 1.7 lines changed: 1, context: html, text, full: html, text
    more labels
  • 1.6 lines changed: 67, context: html, text, full: html, text
    some long labels
  • 1.5 lines changed: 31, context: html, text, full: html, text
    fix up short labels
  • 1.4 lines changed: 11, context: html, text, full: html, text
    remove table that doesn't exist
  • 1.3 lines changed: 17, context: html, text, full: html, text
    change some metadata from longPolyA+ to total
• src/hg/makeDb/trackDb/human/hg18/wgEncodeGisPet.html
  • 1.10 lines changed: 6, context: html, text, full: html, text
    add a little description for the various views
• src/hg/makeDb/trackDb/human/hg18/wgEncodeGisRnaSeq.html
  • 1.6 lines changed: 15, context: html, text, full: html, text
    Add a description for some missing views, and little more text
• src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleChIPseq.html
  • 1.49 lines changed: 2, context: html, text, full: html, text
    Limit to 800px, because the massive matrix makes everything too wide.
• src/hg/makeDb/trackDb/human/hg18/wgEncodeYaleRNAseq.html
  • 1.3 lines changed: 2, context: html, text, full: html, text
    Fix names in a reference
  • 1.2 lines changed: 87, context: html, text, full: html, text
    Finally have the RNA doc from Yale
• src/hg/makeDb/trackDb/human/hg19/trackDb.enc.ra
  • 1.8 lines changed: 16, context: html, text, full: html, text
    change labels in response to Flo
  • 1.7 lines changed: 126, context: html, text, full: html, text
    add 14 Rrbs tracks
• src/hg/makeDb/trackDb/human/hg19/trackDb.ra
  • 1.113 lines changed: 9, context: html, text, full: html, text
    Adding override settings for snp131.
  • 1.112 lines changed: 128, context: html, text, full: html, text
    adding panda and pig to chainnet composite
• src/hg/makeDb/trackDb/human/trackDb.ra
  • 1.529 lines changed: 16, context: html, text, full: html, text
    added new pgSnp tracks from 1000 genomes update
• src/hg/makeDb/trackDb/mouse/trackDb.ra
  • 1.212 lines changed: 21, context: html, text, full: html, text
    add track and description for retro track on alpha and beta for push
• src/hg/makeDb/trackDb/mouse/ucscRetroAli.html
  • 1.1 lines changed: 66, context: html, text, full: html, text
    add track and description for retro track on alpha and beta for push
• src/hg/makeDb/trackDb/nscanGene.html
  • 1.5 lines changed: 7, context: html, text, full: html, text
    add N-SCAN to susScr2
• src/hg/makeDb/trackDb/panda/ailMel1/description.html
  • 1.7 lines changed: 1, context: html, text, full: html, text
    changing citation
• src/hg/makeDb/trackDb/pig/susScr2/description.html
  • 1.3 lines changed: 12, context: html, text, full: html, text
    changing sample position queries for susScr2
• src/hg/makeDb/trackDb/pig/susScr2/trackDb.ra
  • 1.6 lines changed: 5, context: html, text, full: html, text
    add N-SCAN to susScr2
• src/hg/makeDb/trackDb/pig/trackDb.chainNet.ra
  • 1.2 lines changed: 3, context: html, text, full: html, text
    adding chain and matrix overrides for monDom5 and hg19
• src/hg/makeDb/trackDb/snp131.html
  • 1.1 lines changed: 245, context: html, text, full: html, text
    Adding snp131.
• src/hg/makeDb/trackDb/trackDb.ra
  • 1.625 lines changed: 1, context: html, text, full: html, text
    add N-SCAN to susScr2
  • 1.624 lines changed: 20, context: html, text, full: html, text
    Adding snp131.
• src/hg/qaPushQ/qaPushQ.c
  • 1.124 lines changed: 2, context: html, text, full: html, text
    adding antonio to the list of auto-locking users as requested
• src/hg/utils/automation/makeDownloads.pl
  • 1.26 lines changed: 5, context: html, text, full: html, text
    Change example file in liftOver/README.txt to be ToHg19 (was ToHg18).
• src/hg/utils/automation/makeGenomeDb.pl
  • 1.30 lines changed: 17, context: html, text, full: html, text
    verify no dots in chrom names
• src/hg/utils/phyloTrees/49way.dissect.txt
  • 1.2 lines changed: 1, context: html, text, full: html, text
    sheep is oviAri not oviAra
• src/hg/utils/phyloTrees/49way.nh
  • 1.2 lines changed: 1, context: html, text, full: html, text
    sheep is oviAri not oviAra
• src/inc/common.h
  • 1.170 lines changed: 6, context: html, text, full: html, text
    Added stripEnclosingQuotes()
• src/inc/net.h
  • 1.38 lines changed: 7, context: html, text, full: html, text
    Adding support for http(s) proxy
• src/lib/common.c
  • 1.147 lines changed: 22, context: html, text, full: html, text
    Added stripEnclosingQuotes()
• src/lib/net.c
  • 1.80 lines changed: 90, context: html, text, full: html, text
    Adding support for http(s) proxy
• src/lib/psl.c
  • 1.83 lines changed: 2, context: html, text, full: html, text
    fixed bug were target name index was not created if bin was not created
  • 1.82 lines changed: 145, context: html, text, full: html, text
    have pslCheck catch overall ranges that don't match block ranges
• src/product/README.proxy
  • 1.1 lines changed: 22, context: html, text, full: html, text
    Adding support for http(s) proxy
• src/product/ex.hg.conf
  • 1.23 lines changed: 5, context: html, text, full: html, text
    Adding support for http(s) proxy
• src/test/buildTableDescriptions.pl
  • 1.44 lines changed: 6, context: html, text, full: html, text
    Remove check for canonical db name format -- vestige from when hgwdev had dozens of Lowe lab databases. New db names e.g. felCatV17e don't fit the old regex, but having active=1 in dbDb is good enough.
• src/utils/qa/qaThis.csh
  • 1.11 lines changed: 2, context: html, text, full: html, text
    typo
  • 1.10 lines changed: 9, context: html, text, full: html, text
    fixing some errors, commenting out features until adjusted
• src/utils/qa/showTracks
  • 1.7 lines changed: 46, context: html, text, full: html, text
    hack to keep it afloat, the list was getting too big and I had to fetch 50 record chunks at a time. probably need to be re-designed at some point now that ENCODE and other stuff is creating thousands of tracks where we used to have hundreds
• src/utils/qa/weeklybld/buildEnv.csh
  • 1.109 lines changed: 3, context: html, text, full: html, text
    v229 final build

• lines changed: 147333
• files changed: 109