Commits for kent
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v245_base to v246_preview (2011-01-04 to 2010-01-11) v246
- Made it so that netUrlOpenSockets (and hence netUrlOpen and netLineFileOpen) can handle a plain unix file name as well as a URL.
- Making freen test netLineFileOpen.
- src/hg/oneShot/freen/freen.c - lines changed 30, context: html, text, full: html, text
- Making trackDbFromRa() able to take a URL as well as a file name.
- src/hg/lib/trackDbCustom.c - lines changed 1, context: html, text, full: html, text
- Testing track list.
- src/hg/oneShot/freen/freen.c - lines changed 22, context: html, text, full: html, text
- Adding a bunch of debugging stuff.
- src/hg/hgTracks/hgTracks.c - lines changed 23, context: html, text, full: html, text
- Making dataHubs work with oneWig.ra and reducing the debugging.
- src/hg/hgTracks/hgTracks.c - lines changed 12, context: html, text, full: html, text
- Start version of hub checker.
- src/hg/utils/hubCheck/hubCheck.c - lines changed 200, context: html, text, full: html, text
- src/hg/utils/hubCheck/makefile - lines changed 18, context: html, text, full: html, text
- Changing freen to test stripRegEx
- src/hg/oneShot/freen/freen.c - lines changed 17, context: html, text, full: html, text
- Adding new function pathRelativeToFile
- Adding new functions udcFileReadAll and udcWrapShortLineFile
- Adding trackDbFromOpenRa entry point.
- src/hg/lib/trackDbCustom.c - lines changed 14, context: html, text, full: html, text
- Reading tdb list for a given genome for a hub.
- src/hg/utils/hubCheck/hubCheck.c - lines changed 23, context: html, text, full: html, text
- src/hg/utils/hubCheck/makefile - lines changed 2, context: html, text, full: html, text
- Checking trackDb.ra file to make sure items are containers or have bigDataUrl. Some other checks.
- src/hg/utils/hubCheck/hubCheck.c - lines changed 135, context: html, text, full: html, text
- Moving many routines from hubCheck to trackHub.c library file.
- src/hg/lib/trackHub.c - lines changed 281, context: html, text, full: html, text
- src/hg/utils/hubCheck/hubCheck.c - lines changed 246, context: html, text, full: html, text
- Adding catTwoStrings to common library.
- Adding trackHubAddNamePrefix to help give hubs their own name space within cart.
- Redoing dataHub using new trackHub library routines. Still pretty embryonic, but once again is displaying a couple of tracks for me, this time ones that are genuinely remote. Code is activated by having a 'tracksHub' variable in the cart, which currently is only possible by hacking with cartDump.
- src/hg/hgTracks/bigBedTrack.c - lines changed 6, context: html, text, full: html, text
- src/hg/hgTracks/bigWigTrack.c - lines changed 3, context: html, text, full: html, text
- src/hg/hgTracks/hgTracks.c - lines changed 32, context: html, text, full: html, text
- src/hg/hgTracks/hgTracks.h - lines changed 2, context: html, text, full: html, text
- Making hubs appear in group list.
- src/hg/hgTracks/hgTracks.c - lines changed 44, context: html, text, full: html, text
- Adding hubConnect module to help manage list of hubs that are available.
- src/hg/inc/hubConnect.h - lines changed 15, context: html, text, full: html, text
- src/hg/lib/hubConnect.c - lines changed 24, context: html, text, full: html, text
- Adding 'import tracks' button to hgGateway.
- src/hg/hgGateway/hgGateway.c - lines changed 11, context: html, text, full: html, text
- Making hubConnect.as and hubConnect.sql. This is _not_ done by autoSql since we just want field-by-field access of this in the code.
- src/hg/inc/hubConnect.h - lines changed 2, context: html, text, full: html, text
- src/hg/lib/hubConnect.as - lines changed 13, context: html, text, full: html, text
- src/hg/lib/hubConnect.c - lines changed 2, context: html, text, full: html, text
- src/hg/lib/hubConnect.sql - lines changed 20, context: html, text, full: html, text
- Checking in a skeletal hub connection page.
- src/hg/hgHubConnect/hgHubConnect.c - lines changed 101, context: html, text, full: html, text
- src/hg/hgHubConnect/makefile - lines changed 17, context: html, text, full: html, text
- Adding genome and assembly to hgHubConnect, and a submit button. Adding dbList to hubConnect table.
- src/hg/hgHubConnect/hgHubConnect.c - lines changed 56, context: html, text, full: html, text
- src/hg/inc/hubConnect.h - lines changed 3, context: html, text, full: html, text
- src/hg/lib/hubConnect.as - lines changed 2, context: html, text, full: html, text
- src/hg/lib/hubConnect.sql - lines changed 2, context: html, text, full: html, text
- Starting to make hgHubConnect talk with hgTracks and hgTrackUi. Right now the tracks appear on the track list, but are not displaying properly.
- src/hg/hgHubConnect/hgHubConnect.c - lines changed 13, context: html, text, full: html, text
- src/hg/hgTrackUi/hgTrackUi.c - lines changed 24, context: html, text, full: html, text
- src/hg/hgTracks/hgTracks.c - lines changed 27, context: html, text, full: html, text
- src/hg/hgTracks/hgTracks.h - lines changed 1, context: html, text, full: html, text
- src/hg/inc/hubConnect.h - lines changed 48, context: html, text, full: html, text
- src/hg/lib/hubConnect.c - lines changed 125, context: html, text, full: html, text
- Adding name parameter to hubOpen call.
- src/hg/utils/hubCheck/hubCheck.c - lines changed 1, context: html, text, full: html, text
- Fixing conflicts from merging with master.
- Updating import button to work with changes in main branch.
- src/hg/hgGateway/hgGateway.c - lines changed 5, context: html, text, full: html, text
- Making it so only hubs actually turned on are added.
- src/hg/lib/hubConnect.c - lines changed 7, context: html, text, full: html, text
- Fixing bug where bogus NULL would be returned for bbiFileName.
- src/hg/hgTracks/bigBedTrack.c - lines changed 2, context: html, text, full: html, text
- Making system work even when there are tabs rather than spaces in the type, shortLabel, or longLabel fields.
- src/hg/makeDb/hgTrackDb/hgTrackDb.c - lines changed 3, context: html, text, full: html, text
- Removing some ugly debugging statements.
- Making it so system handles missing aggregate tag in multiWig trackDb stanzas.
- src/hg/hgTracks/multiWig.c - lines changed 10, context: html, text, full: html, text
- Sneaking in a commented out include for testing stuff vs. data hub tracks that do the same thing.
- src/hg/makeDb/trackDb/human/hg19/trackDb.ra - lines changed 1, context: html, text, full: html, text
- Removing some debugging statements.
- src/hg/hgTracks/bigBedTrack.c - lines changed 1, context: html, text, full: html, text
- src/hg/hgTracks/hgTracks.c - lines changed 4, context: html, text, full: html, text
- Fixing redmine issue #2151 where multiWig tracks had to be visibility full in trackDb.ra to _ever_ be seen properly.
- src/hg/hgTracks/hgTracks.h - lines changed 1, context: html, text, full: html, text
- src/hg/hgTracks/multiWig.c - lines changed 1, context: html, text, full: html, text
- src/hg/hgTracks/simpleTracks.c - lines changed 15, context: html, text, full: html, text
- Removing debugging statements.
- src/hg/lib/hubConnect.c - lines changed 1, context: html, text, full: html, text
- Removing debugging statements.
- src/hg/hgTracks/hgTracks.c - lines changed 11, context: html, text, full: html, text
- src/hg/hgTracks/multiWig.c - lines changed 0, context: html, text, full: html, text
- Commenting out import button in preparation for merging with main tree.
- src/hg/hgGateway/hgGateway.c - lines changed 2, context: html, text, full: html, text
- Adding back in import button
- src/hg/hgGateway/hgGateway.c - lines changed 2, context: html, text, full: html, text
- Fixing it's/its grammar mistake.
- src/hg/hgHubConnect/hgHubConnect.c - lines changed 1, context: html, text, full: html, text
- Adding trackDbPolishAfterLinkup routine that bundles together a number of other calls, and exposing it for use by data hub trackDb list makers.
- Making trackHub tolerate 'on' and 'off' in a parent line in trackDb.ra file.
- Starting to get trackHub stuff to work with composite tracks. (Using UNC Faire as a test set on hg19.)
- src/hg/hgTrackUi/hgTrackUi.c - lines changed 1, context: html, text, full: html, text
- src/hg/hgTracks/hgTracks.c - lines changed 3, context: html, text, full: html, text
- Fixing subtrack sorting problem in composite tracks in track hub.
- src/hg/hgTracks/hgTracks.c - lines changed 18, context: html, text, full: html, text
- src/hg/hgTracks/simpleTracks.c - lines changed 2, context: html, text, full: html, text
- src/hg/lib/trackDbCustom.c - lines changed 62, context: html, text, full: html, text
- src/hg/makeDb/hgTrackDb/hgTrackDb.c - lines changed 66, context: html, text, full: html, text
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