Commits for hiram

v382_preview2 to v382_base (2019-05-13 to 2019-05-20) v382

e2210c09420d6cdfac88f9cbea58172fbeb1e236 Mon May 13 10:27:44 2019 -0700

• correct azweig email no redmine
  • src/utils/qa/weeklybld/sendLogEmail.pl - lines changed 1, context: html, text, full: html, text

316230834978cf23c7ae8199514283626819fa28 Mon May 13 14:15:21 2019 -0700

• keep protected data out of view refs #18869
  • src/hg/hubApi/hubApi.c - lines changed 22, context: html, text, full: html, text

6fee91c9d0a6a9a3d9e3588e44ae92596a9aa9fb Mon May 13 14:37:27 2019 -0700

• recognizing the trackDb setting tableBrowser to avoid revealing protected data refs #18869
  • src/hg/hubApi/getData.c - lines changed 5, context: html, text, full: html, text
  • src/hg/hubApi/list.c - lines changed 8, context: html, text, full: html, text

ffb8a4e71db0a481b94cba10e3b2802c691af7be Mon May 13 14:47:40 2019 -0700

• adding error 403 Forbidden
  • src/hg/hubApi/dataApi.h - lines changed 2, context: html, text, full: html, text

af113249f30db748bae4c4c79cc270c548eb46d4 Tue May 14 14:13:29 2019 -0700

• now providing an itemCount for each track in the list tracks function refs #18869
  • src/hg/hubApi/list.c - lines changed 80, context: html, text, full: html, text

979ce8e9bbd8a3bb7bdf42081ee4d1131de7c4b9 Tue May 14 14:34:18 2019 -0700

• now including itemCount in list tracks output refs #18869
  • src/hg/hubApi/tests/expected/list02.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/list03.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/list08.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/list09.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/notSup02.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

6a5e7468896f8b879d73040d4a6a9687bcc6227c Tue May 14 15:10:40 2019 -0700

• punting on split files return itemCount=0 refs #18869
  • src/hg/hubApi/list.c - lines changed 10, context: html, text, full: html, text

c818205d3f6f09c7cc93d8a5e8b0ab69a28fb324 Tue May 14 16:13:22 2019 -0700

• now indicating maxItemsOutput limit reached refs #18869
  • src/hg/hubApi/tests/expected/test39.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test40.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test8.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig01.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig02.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig03.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig04.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig05.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig06.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig07.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig08.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig09.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig10.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig11.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig12.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig13.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig14.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig15.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig16.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig17.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig18.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig19.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig20.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig21.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig22.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig23.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/wig24.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

ffcb793749fe12db176c00c04c0bd0676cf76a4d Tue May 14 16:15:12 2019 -0700

• now indicating maxItemsOutput limit reached refs #18869
  • src/hg/hubApi/apiUtils.c - lines changed 6, context: html, text, full: html, text
  • src/hg/hubApi/dataApi.h - lines changed 1, context: html, text, full: html, text
  • src/hg/hubApi/getData.c - lines changed 16, context: html, text, full: html, text
  • src/hg/hubApi/hubApi.c - lines changed 2, context: html, text, full: html, text

1e64cd7af04589dcf62384be522455b1021eaecf Tue May 14 16:19:01 2019 -0700

• the Broad dog hub broke down refs #18869
  • src/hg/hubApi/tests/makefile - lines changed 3, context: html, text, full: html, text

3d50e0f18a7c64a85cd2dce1440f59ab0ee08ed7 Tue May 14 21:54:51 2019 -0700

• until this page becomes smart with js make the examples go explicitly to api.genome.ucsc.edu refs #18869
  • src/hg/htdocs/goldenPath/help/api.html - lines changed 24, context: html, text, full: html, text

a966cf08fad9018e21921f1f34c70e4b36e5b8b6 Wed May 15 14:40:05 2019 -0700

• correct error code reference for protected data 404->403 refs #18869
  • src/hg/htdocs/FAQ/FAQdownloads.html - lines changed 1, context: html, text, full: html, text

40412e28d89a9d0e8ec7cc61ce56c93c600161ea Wed May 15 14:47:38 2019 -0700

• include reference to documentation FAQ for protected data refs #18869
  • src/hg/hubApi/getData.c - lines changed 1, context: html, text, full: html, text

4d1fcce80ce7b5c9391820136892970dcd975748 Wed May 15 15:09:09 2019 -0700

• add restricted data error test refs #18869
  • src/hg/hubApi/tests/expected/err39.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/makefile - lines changed 7, context: html, text, full: html, text

9a9c276df329180208cfae36510f268bce72dccf Thu May 16 11:08:31 2019 -0700

• add note about moved URL for spec document no redmine
  • src/hg/das/README - lines changed 2, context: html, text, full: html, text

41041598ce79e1b299e5aba1a9b1e2fe41775d12 Thu May 16 11:27:11 2019 -0700

• reduce number of test servers refs #18869
  • src/hg/hubApi/tests/jsonConsumer.pl - lines changed 5, context: html, text, full: html, text

ae0d467a80c1543026ccc2252ffd319b184e12d2 Thu May 16 11:28:07 2019 -0700

• improved warning messages no redmine
  • src/hg/liftAgp/liftAgp.c - lines changed 5, context: html, text, full: html, text

79fb0cba806fd429dbd35caf21944d3e3b24a3d2 Thu May 16 11:28:45 2019 -0700

• note about index on Frames table no redmine
  • src/hg/makeDb/doc/dm6/multiz124way.txt - lines changed 3, context: html, text, full: html, text

50a03ec4455df9e10b785500b2de984c3452a966 Thu May 16 11:29:39 2019 -0700

• add chainNet for GRCm38B experiment no redmine
  • src/hg/makeDb/trackDb/trackDb.chainNet.ra - lines changed 51, context: html, text, full: html, text

7173ec16f870dfd0a5ee590354fc604ecfcf1bc9 Thu May 16 11:30:42 2019 -0700

• correctly dumping guides no redmine
  • src/utils/crisprKmers/crisprKmers.c - lines changed 3, context: html, text, full: html, text

711e4eb4e684dad38a67539691fbef21a9a3f8fa Thu May 16 11:35:18 2019 -0700

• reformat white space no code change no redmine
  • src/weblet/bottleneck/bottleneck.c - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

54fd52c6942b2db5ec81dd14fde7e4043b7ceafe Thu May 16 11:43:01 2019 -0700

• adding JSON API menu link to help page refs #18869
  • src/hg/htdocs/inc/globalNavBar.inc - lines changed 1, context: html, text, full: html, text

32155e82446098f60455eb7dd236f3739b049983 Thu May 16 13:49:45 2019 -0700

• recommended code review refs #23437
  • src/hg/hubApi/dataApi.h - lines changed 19, context: html, text, full: html, text

ae4d6b0988cc34e674209890007aa8b46381603e Thu May 16 14:31:45 2019 -0700

• now returning itemsReturned count for any getData track function refs #18869
  • src/hg/hubApi/apiUtils.c - lines changed 5, context: html, text, full: html, text
  • src/hg/hubApi/dataApi.h - lines changed 1, context: html, text, full: html, text
  • src/hg/hubApi/getData.c - lines changed 17, context: html, text, full: html, text
  • src/hg/hubApi/hubApi.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hubApi/tests/expected/test10.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test11.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test12.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test13.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test14.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test15.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test16.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test19.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test21.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test26.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test27.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test28.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test29.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)
  • src/hg/hubApi/tests/expected/test9.gz - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change or file-permission change shows no diff)

fc0d65cb3b98202426346c555bfef1eb5bfacd1a Thu May 16 14:53:13 2019 -0700

• consolidate all the parameter passing into one spot refs #18869
  • src/hg/hubApi/tests/jsonConsumer.pl - lines changed 103, context: html, text, full: html, text

623066b7ef5424f51400355a62706c2c5bc69283 Mon May 20 09:34:05 2019 -0700

• add html page for crisprAll track refs #23514
  • src/hg/makeDb/trackDb/crisprAll.html - lines changed 204, context: html, text, full: html, text

0793cd0667685cd1dad0d6d431fbd9dc86a375d6 Mon May 20 10:11:59 2019 -0700

• v382 final build, refs #23326
  • src/utils/qa/weeklybld/buildEnv.csh - lines changed 3, context: html, text, full: html, text

cab37f8d9da4565b7c5bbbe643c0827e5581f2f7 Mon May 20 10:12:42 2019 -0700

• New version number v382
  • src/hg/inc/versionInfo.h - lines changed 1, context: html, text, full: html, text
  • src/inc/srcVersion.h - lines changed 1, context: html, text, full: html, text