Commits for hiram

v388_preview to v388_preview2 (2019-09-09 to 2019-09-16) v388

832026164cc5f13b2764e5556bf003864d662938 Mon Sep 9 14:19:33 2019 -0700

• now allowing hgCustom to play the bottleneck game, and bold highlight the error 429 message refs #23217
  • src/hg/hgCustom/hgCustom.c - lines changed 24, context: html, text, full: html, text
  • src/hg/lib/botDelay.c - lines changed 1, context: html, text, full: html, text

64892522148b1d3ef907e319e1b81c2f5862459d Mon Sep 9 14:33:20 2019 -0700

• correctly use the name hgCustom in the earlyBotCheck() call refs #23217
  • src/hg/hgCustom/hgCustom.c - lines changed 1, context: html, text, full: html, text

cdae2fc61c0a4e03c2dee7321c91a42aa1ebdfc0 Mon Sep 9 15:43:17 2019 -0700

• now getting hgTables into the earlyBotCheck() game and fixup earlyBotCheck() to honor the exception list and default to a delay fraction value of 1.0 refs #23217
  • src/hg/hgTables/hgTables.c - lines changed 10, context: html, text, full: html, text
  • src/hg/lib/botDelay.c - lines changed 9, context: html, text, full: html, text

6c953808328fb7f034e4a36e99dc1ce326859508 Mon Sep 9 15:44:35 2019 -0700

• missing a ; line end character refs #23217
  • src/hg/lib/botDelay.c - lines changed 1, context: html, text, full: html, text

75343bb8e3633b0b942731a7649c6b009c2bb769 Wed Sep 11 08:49:49 2019 -0700

• beginning next Rat refs #21579
  • src/hg/makeDb/doc/regenRn1/initialBuild.txt - lines changed 928, context: html, text, full: html, text

711a43a7e71b5dc994106d21f9b3254fe48b009b Wed Sep 11 08:59:03 2019 -0700

• Added regenRn1 - Regeneron rat refs #21579
  • src/hg/makeDb/genbank/etc/genbank.conf - lines changed 18, context: html, text, full: html, text

c890de997de350a495d4c58118fba49159a1b297 Wed Sep 11 09:01:51 2019 -0700

• Added regenRn1 - Regeneron rat refs #21579
  • src/hg/makeDb/genbank/etc/align.dbs - lines changed 3, context: html, text, full: html, text
  • src/hg/makeDb/genbank/etc/hgwdev.dbs - lines changed 3, context: html, text, full: html, text

5002bc264773860c46470525d2f8802f2c45679a Wed Sep 11 09:37:10 2019 -0700

• liftOver to regenRn0 and regenRn1 refs #21579
  • src/hg/makeDb/doc/rn6.txt - lines changed 61, context: html, text, full: html, text

e932767ea60a610752038c2c42713e0fd48645a6 Wed Sep 11 10:23:49 2019 -0700

• build regenRn0 browser refs #21579
  • src/hg/makeDb/doc/regenRn0/initialBuild.txt - lines changed 1045, context: html, text, full: html, text

ca3f45c0d7c8ea372d9202eb5160c0f9268c95f2 Wed Sep 11 10:38:12 2019 -0700

• use the correct default delay fraction refs #23217
  • src/hg/hgTables/hgTables.c - lines changed 3, context: html, text, full: html, text
  • src/hg/lib/botDelay.c - lines changed 13, context: html, text, full: html, text

0dcda7d7e41d042cdc893034b076b9e70d489af0 Wed Sep 11 12:15:48 2019 -0700

• fix incorrect name for apaVit1 refs #22687
  • src/hg/utils/phyloTrees/commonNames.sh - lines changed 1, context: html, text, full: html, text

a47f57d008f2db28a7b140ece87cbcfb8e8a5c0c Thu Sep 12 14:18:19 2019 -0700

• expand earlyBotCheck to manage two types of outputs, recognize defaults, and adding hgGateway to the game refs #23217
  • src/hg/hgCustom/hgCustom.c - lines changed 3, context: html, text, full: html, text
  • src/hg/hgGateway/hgGateway.c - lines changed 11, context: html, text, full: html, text
  • src/hg/hgTables/hgTables.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.c - lines changed 13, context: html, text, full: html, text
  • src/hg/hgTracks/hgTracks.h - lines changed 2, context: html, text, full: html, text
  • src/hg/hgTracks/mainMain.c - lines changed 1, context: html, text, full: html, text
  • src/hg/hgTracks/renderMain.c - lines changed 1, context: html, text, full: html, text
  • src/hg/lib/botDelay.c - lines changed 58, context: html, text, full: html, text
  • src/hg/lib/customTrack.c - lines changed 5, context: html, text, full: html, text

2c0d72680e3e008b31cc5946435d4ec8a8657e05 Thu Sep 12 14:24:08 2019 -0700

• expand earlyBotCheck to manage two types of outputs, recognize defaults, and adding hgGateway to the game refs #23217
  • src/hg/inc/botDelay.h - lines changed 5, context: html, text, full: html, text

68937bef9a85069b771cbdf25a782c9f62b9bcf6 Thu Sep 12 14:46:35 2019 -0700

• adding rules for regenRn1 refs #21579
  • src/hg/makeDb/schema/all.joiner - lines changed 8, context: html, text, full: html, text

74c99d39c800193f07a881ce98ee4b7065cee6dc Fri Sep 13 10:00:57 2019 -0700

• get the warning message out of the warning only message to be used elsewhere and add measureTiming printout to hgGateway refs #23217
  • src/hg/hgGateway/hgGateway.c - lines changed 24, context: html, text, full: html, text
  • src/hg/inc/botDelay.h - lines changed 6, context: html, text, full: html, text
  • src/hg/lib/botDelay.c - lines changed 17, context: html, text, full: html, text