Commits for kent
switch to files view, user index
v305_preview2 to v305_base (2014-08-25 to 2014-09-02) v305
- First cut of parallelizing seems to work.
- src/hg/oneShot/freen/freen.c - lines changed 226, context: html, text, full: html, text
- Reversing ordering, and refactoring to set up for parallelization of distance calcs.
- Moving pthreadDoList to new library module, and the parallel hacTree to hacTree.c.
- src/hg/oneShot/freen/freen.c - lines changed 220, context: html, text, full: html, text
- src/inc/pthreadDoList.h - lines changed 67, context: html, text, full: html, text
- src/lib/pthreadDoList.c - lines changed 109, context: html, text, full: html, text
- Adding hacTreeMultiThread.
- Adding test target.
- src/utils/orderMiddle/makefile - lines changed 4, context: html, text, full: html, text
- Adding empty list short-cut and threadCount error checking.
- src/lib/pthreadDoList.c - lines changed 5, context: html, text, full: html, text
- Adding possibility to include precalculated distances to hacTreeMultiThread and improving commenting.
- Adding -rootNames option, and making by default system output complete input file name instead of just root name.
- src/utils/bigWigCorrelate/bigWigCorrelate.c - lines changed 11, context: html, text, full: html, text
- Fixing typo in comment.
- src/hg/encode3/eap/inc/eapGraph.h - lines changed 1, context: html, text, full: html, text
- src/hg/encode3/eap/lib/eapGraph.c - lines changed 1, context: html, text, full: html, text
- Removing sponge-force kludge and allowing hg38 to happen.
- src/hg/encode3/eap/eapSchedule/eapSchedule.c - lines changed 8, context: html, text, full: html, text
- Only doing replicate comparisons on same assembly.
- src/hg/encode3/encodeDataWarehouse/edwMakeReplicateQa/edwMakeReplicateQa.c - lines changed 3, context: html, text, full: html, text
- Changing the new hacTree code so that it creates trees in same order (I hope) as old code. Previously it was inverting some branches.
- Adding a little test program.
- src/oneShot/hacTreeTest/hacTreeTest.c - lines changed 118, context: html, text, full: html, text
- src/oneShot/hacTreeTest/makefile - lines changed 3, context: html, text, full: html, text
- src/oneShot/hacTreeTest/testIt - lines changed 3, context: html, text, full: html, text
- Moving utility that doesn't really work to oneShot.
- src/oneShot/orderMiddle/makefile - lines changed 7, context: html, text, full: html, text
- src/oneShot/orderMiddle/orderMiddle.c - lines changed 145, context: html, text, full: html, text
- src/oneShot/orderMiddle/test.expected - lines changed 6, context: html, text, full: html, text
- src/oneShot/orderMiddle/test.lst - lines changed 6, context: html, text, full: html, text
- src/oneShot/orderMiddle/test.pair - lines changed 15, context: html, text, full: html, text
- src/utils/orderMiddle/makefile - lines changed 7, context: html, text, full: html, text
- src/utils/orderMiddle/orderMiddle.c - lines changed 145, context: html, text, full: html, text
- src/utils/orderMiddle/test.expected - lines changed 6, context: html, text, full: html, text
- src/utils/orderMiddle/test.lst - lines changed 6, context: html, text, full: html, text
- src/utils/orderMiddle/test.pair - lines changed 15, context: html, text, full: html, text
- Parallelized bigWig clustering via hacTree to produce a json graph seems to work.
- src/oneShot/bigWigCluster/bigWigCluster.c - lines changed 318, context: html, text, full: html, text
- src/oneShot/bigWigCluster/makefile - lines changed 3, context: html, text, full: html, text
- Adding tabular output. Commenting and cleaning up code.
- src/oneShot/bigWigCluster/bigWigCluster.c - lines changed 131, context: html, text, full: html, text
- Swapping in Jim's version which fixes some parallelization issues and adds a new tabular output.
- src/utils/bigWigCluster/bigWigCluster.c - lines changed 243, context: html, text, full: html, text
- Removing hacTreeExpensiveMerges and simplifying hacTreeMultiThread
switch to files view, user index