File Changes for hiram

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v470_base to v471_preview (2024-08-26 to 2024-09-02) v471

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src/hg/htdocs/assemblySearch.html
- lines changed 2, context: html, text, full: html, text
  f7f79df1b3d0ebea41b0fa0436f0fe65160131ca Mon Aug 26 13:12:08 2024 -0700
  now honoring the back button and restoring the state from the saved state object refs #32596
- lines changed 6, context: html, text, full: html, text
  929d72bd9fa34529245e7969d992a8977da365af Mon Aug 26 14:42:56 2024 -0700
  now with RefSeq representative and RefSeq latest selection options refs #32596
- lines changed 36, context: html, text, full: html, text
  a213555a50875b9a04c3bb4a267a54bea2dd427f Thu Aug 29 14:02:39 2024 -0700
  now with proper interface to assembly status, refSeq category, assembly level refs #32596
- lines changed 2, context: html, text, full: html, text
  00f1aed7796ee719e3468d4b4acfebfd4d542d1b Thu Aug 29 18:36:10 2024 -0700
  correctly follow URL arguments and better state save and restore refs #32589
- lines changed 11, context: html, text, full: html, text
  4f491c033139d8b4f4a2b8b1c8fd76d0f775c090 Mon Sep 2 17:00:03 2024 -0700
  manage all the options in the html page URL and start providing a share this page link refs #32596
src/hg/htdocs/style/assemblySearch.css
- lines changed 6, context: html, text, full: html, text
  929d72bd9fa34529245e7969d992a8977da365af Mon Aug 26 14:42:56 2024 -0700
  now with RefSeq representative and RefSeq latest selection options refs #32596
- lines changed 5, context: html, text, full: html, text
  a213555a50875b9a04c3bb4a267a54bea2dd427f Thu Aug 29 14:02:39 2024 -0700
  now with proper interface to assembly status, refSeq category, assembly level refs #32596
- lines changed 5, context: html, text, full: html, text
  2f18a9c643ecf990e9525610fdda0a31620ca530 Fri Aug 30 22:40:54 2024 -0700
  first pass at highlighting the match strings refs #32596
src/hg/hubApi/assemblyList.py
- lines changed 76, context: html, text, full: html, text
  48466d5a0bfaa3fa457f5a9a07118c323de32b11 Wed Aug 28 18:08:34 2024 -0700
  fixed up to add the new columns refs #33720
src/hg/hubApi/dataApi.h
- lines changed 4, context: html, text, full: html, text
  08a042ae53f8a7ea0b6e15bee0b12fcf48a90a76 Thu Aug 29 14:07:38 2024 -0700
  now with proper interface to assembly status, refSeq category, assembly level refs #32596
src/hg/hubApi/dbDb.clade.year.acc.tsv
- lines changed 248, context: html, text, full: html, text
  f3268ea3b0d6776b704239565d21d110416c6859 Wed Aug 28 18:08:24 2024 -0700
  fixed up to add the new columns refs #33720
src/hg/hubApi/findGenome.c
- lines changed 28, context: html, text, full: html, text
  e39d2c40cdc3e17273b158602400481ae7d2d03d Wed Aug 28 18:44:07 2024 -0700
  correspond with the new table structure and properly output the number values refs #32596
- lines changed 138, context: html, text, full: html, text
  08a042ae53f8a7ea0b6e15bee0b12fcf48a90a76 Thu Aug 29 14:07:38 2024 -0700
  now with proper interface to assembly status, refSeq category, assembly level refs #32596
- lines changed 1, context: html, text, full: html, text
  2230b5a2bad0d3f408763a58dc5c2b6426aef810 Thu Aug 29 14:18:48 2024 -0700
  correctly allow in level=contig refs #32596
- lines changed 2, context: html, text, full: html, text
  0c7c5e88d0ae39e0f8832fe919ea2b69c713ba50 Thu Aug 29 14:26:14 2024 -0700
  correctly add year specification when requested refs #32596
src/hg/hubApi/hubApi.c
- lines changed 1, context: html, text, full: html, text
  08a042ae53f8a7ea0b6e15bee0b12fcf48a90a76 Thu Aug 29 14:07:38 2024 -0700
  now with proper interface to assembly status, refSeq category, assembly level refs #32596
src/hg/inc/assemblyList.h
- lines changed 6, context: html, text, full: html, text
  8ecd4ec7a45dc9f84f487d829b648f69c05fa862 Wed Aug 28 15:11:22 2024 -0700
  adding four columns to the database table for more accurate search refs #32596
src/hg/js/assemblySearch.js
- lines changed 70, context: html, text, full: html, text
  f7f79df1b3d0ebea41b0fa0436f0fe65160131ca Mon Aug 26 13:12:08 2024 -0700
  now honoring the back button and restoring the state from the saved state object refs #32596
- lines changed 28, context: html, text, full: html, text
  929d72bd9fa34529245e7969d992a8977da365af Mon Aug 26 14:42:56 2024 -0700
  now with RefSeq representative and RefSeq latest selection options refs #32596
- lines changed 3, context: html, text, full: html, text
  0590a9eb0c4805669982971bc86d3a06f836a6a6 Mon Aug 26 14:50:02 2024 -0700
  clean lint refs #32596
- lines changed 87, context: html, text, full: html, text
  a213555a50875b9a04c3bb4a267a54bea2dd427f Thu Aug 29 14:02:39 2024 -0700
  now with proper interface to assembly status, refSeq category, assembly level refs #32596
- lines changed 20, context: html, text, full: html, text
  00f1aed7796ee719e3468d4b4acfebfd4d542d1b Thu Aug 29 18:36:10 2024 -0700
  correctly follow URL arguments and better state save and restore refs #32589
- lines changed 72, context: html, text, full: html, text
  2f18a9c643ecf990e9525610fdda0a31620ca530 Fri Aug 30 22:40:54 2024 -0700
  first pass at highlighting the match strings refs #32596
- lines changed 4, context: html, text, full: html, text
  e9b3ea0e4ed31141bd55cec9db0b086b40ed6253 Fri Aug 30 22:52:22 2024 -0700
  jshint to get rid of lint warnings refs #32596
- lines changed 4, context: html, text, full: html, text
  c59c7c3aeda4d5ffae880f2225a27d6df1afc2ab Sat Aug 31 09:06:23 2024 -0700
  this may fix the highlight when the word has non-word characters around it refs #32596
- lines changed 62, context: html, text, full: html, text
  4f491c033139d8b4f4a2b8b1c8fd76d0f775c090 Mon Sep 2 17:00:03 2024 -0700
  manage all the options in the html page URL and start providing a share this page link refs #32596
- lines changed 2, context: html, text, full: html, text
  e7e09cd46e7371080ac8aaed6d63d6f3e16f61a5 Mon Sep 2 17:06:03 2024 -0700
  missing ; refs #32596
src/hg/lib/assemblyList.as
- lines changed 4, context: html, text, full: html, text
  8ecd4ec7a45dc9f84f487d829b648f69c05fa862 Wed Aug 28 15:11:22 2024 -0700
  adding four columns to the database table for more accurate search refs #32596
src/hg/lib/assemblyList.c
- lines changed 82, context: html, text, full: html, text
  8ecd4ec7a45dc9f84f487d829b648f69c05fa862 Wed Aug 28 15:11:22 2024 -0700
  adding four columns to the database table for more accurate search refs #32596
src/hg/lib/assemblyList.sql
- lines changed 5, context: html, text, full: html, text
  8ecd4ec7a45dc9f84f487d829b648f69c05fa862 Wed Aug 28 15:11:22 2024 -0700
  adding four columns to the database table for more accurate search refs #32596
src/hg/makeDb/doc/asmHubs/asmHubs.mk
- lines changed 5, context: html, text, full: html, text
  b0a9fd1a6ba35808bf4bc132bedef37af1b83a2c Wed Aug 28 14:30:29 2024 -0700
  convert the tsv listing to json for external consumption refs $34337
src/hg/makeDb/doc/asmHubs/master.run.list
- lines changed 66, context: html, text, full: html, text
  e57553ce0dfbc42dc541d63da811f273c27c5351 Mon Aug 26 18:38:24 2024 -0700
  an update to catch to BRC genome set list refs #34337
- lines changed 2, context: html, text, full: html, text
  5777a21286dc4cf80343b9505ce0833fdc7dfb5c Tue Aug 27 12:10:32 2024 -0700
  adding one per user request refs #29545
src/hg/makeDb/doc/asmHubs/tsvToJson.py
- lines changed 315, context: html, text, full: html, text
  b0a9fd1a6ba35808bf4bc132bedef37af1b83a2c Wed Aug 28 14:30:29 2024 -0700
  convert the tsv listing to json for external consumption refs $34337
src/hg/makeDb/doc/bacteriaAsmHub/bacteria.orderList.tsv
- lines changed 1, context: html, text, full: html, text
  5777a21286dc4cf80343b9505ce0833fdc7dfb5c Tue Aug 27 12:10:32 2024 -0700
  adding one per user request refs #29545
src/hg/makeDb/doc/brcAsmHub/brc.orderList.tsv
- lines changed 93, context: html, text, full: html, text
  c5942eaefb011d7bc460d6ea713712e9cfe8382d Wed Aug 28 09:20:51 2024 -0700
  rework the list to better match the beginning list from Anton refs #34337
src/hg/makeDb/doc/brcAsmHub/hub.txt
- lines changed 1, context: html, text, full: html, text
  c5942eaefb011d7bc460d6ea713712e9cfe8382d Wed Aug 28 09:20:51 2024 -0700
  rework the list to better match the beginning list from Anton refs #34337
src/hg/makeDb/doc/invertebrateAsmHub/invertebrate.orderList.tsv
- lines changed 73, context: html, text, full: html, text
  e57553ce0dfbc42dc541d63da811f273c27c5351 Mon Aug 26 18:38:24 2024 -0700
  an update to catch to BRC genome set list refs #34337
src/hg/makeDb/doc/legacyAsmHub/legacy.clade.txt
- lines changed 2, context: html, text, full: html, text
  b63c2009dee960a47fbf2e7d5e92259b92c3211a Tue Aug 27 12:26:11 2024 -0700
  clean up listings refs #29545
src/hg/makeDb/doc/legacyAsmHub/legacy.orderList.tsv
- lines changed 1, context: html, text, full: html, text
  b63c2009dee960a47fbf2e7d5e92259b92c3211a Tue Aug 27 12:26:11 2024 -0700
  clean up listings refs #29545
src/utils/trackDbIndexBb/makefile
- lines changed 1, context: html, text, full: html, text
  884237c8d813f6f328f75b139f8f26715452712f Mon Aug 26 14:09:56 2024 -0700
  properly remove destination file before running a blind cp -p to maintain correct permissions no redmine

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