d2cc543ed2c0fc032bc0cf8527ecff098b075aef braney Sun Jul 26 17:24:31 2026 -0700 record the ticket that introduced each hg.conf variable refs #37925 Each setting now carries the Redmine ticket cited by the commit that added its read, or for a flag the commit that turned its default on. --sunset prints it per gate, --html links it, and harvestHgConf.py --tickets groups the settings by whether git can attribute them at all. Nothing looser is used: a commit that merely edits a line is not a commit about the setting on it. A second history walk dates the names that reach cfgOption through a macro, so hgConfAges.json is rebuilt and a refresh now costs about four minutes. No CGI behaviour changes. diff --git src/hg/utils/hgConfCatalog/hgConfAges.json src/hg/utils/hgConfCatalog/hgConfAges.json index d5dc69c1756..e8a3743b6e6 100644 --- src/hg/utils/hgConfCatalog/hgConfAges.json +++ src/hg/utils/hgConfCatalog/hgConfAges.json @@ -1,1389 +1,3758 @@ { "current": 501, "first": { "../cgi-bin/RNAplot": { + "commit": "a127c65d3af", + "subject": "Fixing RNAplot problem with newer versions, refs #11957, note 178 and", + "tickets": [ + 6382, + 11957 + ], "ts": 1394017544, - "version": 296 + "version": 296, + "via": "call" }, "../goldenPath/help/query.html": { + "commit": "33db6013f1b", + "subject": "removing the hg.conf dependency and changing \"examples\" help text to Jim's suggested text, refs #28072", + "tickets": [ + 28072 + ], "ts": 1633958818, - "version": 421 + "version": 421, + "via": "call" }, "../htdocs/urw-fonts": { + "commit": "e68383a5913", + "subject": "turn freeType fonts on by default. Look for them in ../htdocs/urw-fonts", + "tickets": [], "ts": 1617745525, - "version": 412 + "version": 412, + "via": "call" }, "../images/floret.jpg": { + "commit": "5420804fd75", + "subject": "make background image configurable", + "tickets": [], "ts": 1134695700, - "version": 123 + "version": 123, + "via": "call" }, "../js/dbDbTaxonomy.js": { + "commit": "48a35fc7fbf", + "subject": "Enable phylogenetic tree by default so mirrors don't have to go out of their way to get it, at least for genomes that th", + "tickets": [ + 17316 + ], "ts": 1465232412, - "version": 333 + "version": 333, + "via": "call" }, "/data/tmp": { + "commit": "5d5708c5a03", + "subject": "Adding use of /data/tmp or customTrash.tmpdir directory for database loading", + "tickets": [], "ts": 1168645950, - "version": 149 + "version": 149, + "via": "call" }, "/dev/shm/trackDbCache": { + "commit": "68ddd76f1be", + "subject": "make /dev/shm/trackDbCache the default directory for the trackDb cache refs #35945", + "tickets": [ + 35945 + ], "ts": 1771635048, - "version": 494 + "version": 494, + "via": "call" }, "/gbdb": { + "commit": "16720e7dfab", + "subject": "first big commit for hgGeneGraph. Others will follow as QA progresses. refs #13634", + "tickets": [ + 13634 + ], "ts": 1493419148, - "version": 348 + "version": 348, + "via": "call" }, "/gbdb/": { + "commit": "225c0d55992", + "subject": "library changes for the browser box: This changes mostly hdb and jksql,", + "tickets": [], "ts": 1389803637, - "version": 294 + "version": 294, + "via": "call" }, "/gbdb/$db/trackDb.ix": { + "commit": "45430d7206c", + "subject": "add config variable to put trix file somewhere else", + "tickets": [], "ts": 1287777831, - "version": 242 + "version": 242, + "via": "call" }, "/usr/share/fonts/default/Type1": { + "commit": "50214f80596", + "subject": "support font choice in freetype font support", + "tickets": [], "ts": 1601426972, - "version": 404 + "version": 404, + "via": "call" }, "0": { + "commit": "1d95bea96bc", + "subject": "adding CGI var logging option for hg.conf, refs #36533", + "tickets": [ + 36533 + ], "ts": 1761309294, - "version": 489 + "version": 489, + "via": "call" }, "1": { + "commit": "cde87e3d79e", + "subject": "improved bottleneck penalty for custom track loading even when they fail to load refs #28049", + "tickets": [ + 28049 + ], "ts": 1630527962, - "version": 419 + "version": 419, + "via": "call" }, "10": { + "commit": "99273435366", + "subject": "Reducing bot abuse by restricting the number of IP addresses we'll accept the same hguid", + "tickets": [ + 37494 + ], "ts": 1779123521, - "version": 498 + "version": 498, + "via": "call" }, "10000": { + "commit": "c59e64a740c", + "subject": "use 10,000 for the number of items to load from a bigBed", + "tickets": [], "ts": 1705605275, - "version": 459 + "version": 459, + "via": "call" }, "100000": { + "commit": "7b475d1ee80", + "subject": "make maxItemsPossible an hg.conf variable", + "tickets": [], "ts": 1710536073, - "version": 462 + "version": 462, + "via": "call" }, "1000000": { + "commit": "cd40e92bef5", + "subject": "limit maxItems to maxItemsPerRow (1,000). Use one million for the", + "tickets": [], "ts": 1705353483, - "version": 459 + "version": 459, + "via": "call" }, "20": { + "commit": "d282b1c0b5e", + "subject": "implement cgiApoptosis system", + "tickets": [], "ts": 1306951036, - "version": 251 + "version": 251, + "via": "call" }, "20s": { + "commit": "cf913e42c14", + "subject": "making sure that hgGeneGraph is not spawning more and more dot programs. This came up because on Nov 14 today, a lot of ", + "tickets": [], "ts": 1731599443, - "version": 473 + "version": 473, + "via": "call" }, "3": { + "commit": "48886c882e7", + "subject": "hgTracks: merge pixel-adjacent blocks when drawing direction barbs", + "tickets": [ + 37889 + ], "ts": 1784666288, - "version": 501 + "version": 501, + "via": "call" }, "50000": { + "commit": "a33f1b92820", + "subject": "use summary information in bigBeds when filters are off and there are", + "tickets": [], "ts": 1706218657, - "version": 459 + "version": 459, + "via": "call" }, "600": { + "commit": "99273435366", + "subject": "Reducing bot abuse by restricting the number of IP addresses we'll accept the same hguid", + "tickets": [ + 37494 + ], "ts": 1779123521, - "version": 498 + "version": 498, + "via": "call" }, "90": { + "commit": "e72cf0100e0", + "subject": "Adding parallel-fetch loading of remote bigDataUrl tracks using pthreads", + "tickets": [], "ts": 1309810115, - "version": 253 + "version": 253, + "via": "call" + }, + "BAMMaxItems": { + "commit": "540506f7475", + "subject": "change BAM support to use maxItems as a signal to go into coverage", + "tickets": [], + "ts": 1745884559, + "version": 481, + "via": "literal" }, "Bitmap": { + "commit": "deca5eaeff6", + "subject": "finalizing freeType font work", + "tickets": [], "ts": 1605990583, - "version": 407 + "version": 407, + "via": "call" }, "Examples": { + "commit": "3f5d580335f", + "subject": "adding view chrom sizes menu entry and improving the seq view page a little, refs #25796", + "tickets": [ + 25796 + ], "ts": 1711460186, - "version": 462 + "version": 462, + "via": "call" }, "HGDB_ASSEMBLYLIST_STATUS_TABLE": { + "commit": "3e420ec8296", + "subject": "helper function assemblyListTableName() refs #32897", + "tickets": [ + 32897 + ], "ts": 1723597387, - "version": 469 + "version": 469, + "via": "call" }, "HGDB_CAN_DO_COVERAGE": { + "commit": "dbff2df65c3", + "subject": "add the ability to get coverage (wiggle) plots for bed type tracks #952", + "tickets": [ + 952 + ], "ts": 1417828027, - "version": 309 + "version": 309, + "via": "call" }, "HGDB_CLADETABLE": { + "commit": "c4fe426d093", + "subject": "allow using different names for the following tables: dbDb, defaultDb,", + "tickets": [], "ts": 1426458132, - "version": 313 + "version": 313, + "via": "call" }, "HGDB_DBDBTABLE": { + "commit": "c4fe426d093", + "subject": "allow using different names for the following tables: dbDb, defaultDb,", + "tickets": [], "ts": 1426458132, - "version": 313 + "version": 313, + "via": "call" }, "HGDB_DEFAULTCARTTABLE": { + "commit": "a3388dd3d91", + "subject": "add ability to have a default cart other than the empty one.", + "tickets": [], "ts": 1606057828, - "version": 407 + "version": 407, + "via": "call" }, "HGDB_DEFAULTDBTABLE": { + "commit": "c4fe426d093", + "subject": "allow using different names for the following tables: dbDb, defaultDb,", + "tickets": [], "ts": 1426458132, - "version": 313 + "version": 313, + "via": "call" }, "HGDB_GENARK_STATUS_TABLE": { + "commit": "d58aec2ee04", + "subject": "check to make sure genark table exists before using it.", + "tickets": [], "ts": 1620777844, - "version": 414 + "version": 414, + "via": "call" }, "HGDB_GENOMECLADETABLE": { + "commit": "c4fe426d093", + "subject": "allow using different names for the following tables: dbDb, defaultDb,", + "tickets": [], "ts": 1426458132, - "version": 313 + "version": 313, + "via": "call" }, "HGDB_HUB_PUBLIC_TABLE": { + "commit": "e77dcca9b1b", + "subject": "allow specifying different names for the hubPublic and hubStatus tables (#6162)", + "tickets": [ + 6162 + ], "ts": 1322699150, - "version": 259 + "version": 259, + "via": "call" }, "HGDB_HUB_STATUS_TABLE": { + "commit": "e77dcca9b1b", + "subject": "allow specifying different names for the hubPublic and hubStatus tables (#6162)", + "tickets": [ + 6162 + ], "ts": 1322699150, - "version": 259 + "version": 259, + "via": "call" }, "HGDB_NAMED_SESSION_DB": { + "commit": "4d2eb49f841", + "subject": "Change recommended track sets to merge with the current session. refs #28525", + "tickets": [ + 28525 + ], "ts": 1680816542, - "version": 446 + "version": 446, + "via": "call" }, "HGDB_SESSIONDBTABLE": { + "commit": "1d8785d66ed", + "subject": "allow for different names for the sessionDb and userDb tables", + "tickets": [], "ts": 1428523543, - "version": 314 + "version": 314, + "via": "call" }, "HGDB_USERDBTABLE": { + "commit": "1d8785d66ed", + "subject": "allow for different names for the sessionDb and userDb tables", + "tickets": [], "ts": 1428523543, - "version": 314 + "version": 314, + "via": "call" }, "Helvetica": { + "commit": "c73823892aa", + "subject": "get the postscript driver to allow font specification. Use the correct", + "tickets": [], "ts": 1601502828, - "version": 404 + "version": 404, + "via": "call" }, "JKSQL_TRACE": { + "commit": "fd591cb7db4", + "subject": "Adding GBIB/GBIC support to hgGeneGraph, refs #13634", + "tickets": [ + 13634 + ], "ts": 1499369605, - "version": 351 + "version": 351, + "via": "call" }, "LIFTOVERCHAINNAME": { + "commit": "e8c22713a73", + "subject": "allow quickLiftChain and liftOverChain tables to have different names", + "tickets": [], "ts": 1757548483, - "version": 487 + "version": 487, + "via": "call" }, "Please take our survey": { + "commit": "381da604707", + "subject": "Adding back support for hg.conf settings survey and surveyLabel to hgGateway.", + "tickets": [], "ts": 1467842604, - "version": 335 + "version": 335, + "via": "call" }, "QUICKLIFTCHAINNAME": { + "commit": "e8c22713a73", + "subject": "allow quickLiftChain and liftOverChain tables to have different names", + "tickets": [], "ts": 1757548483, - "version": 487 + "version": 487, + "via": "call" }, "Search Help": { + "commit": "871f2d65497", + "subject": "Adding \"search help\" link to hgTracks, refs #15554", + "tickets": [ + 15554 + ], "ts": 1630066704, - "version": 419 + "version": 419, + "via": "call" }, "abort": { + "commit": "87d0536f281", + "subject": "Oops. I meant to turn this to default abort a long time ago.", + "tickets": [], "ts": 1518138351, - "version": 360 + "version": 360, + "via": "call" }, "addJs": { + "commit": "5ee63c17bf3", + "subject": "increasing buffer for connected hubs, refs #33973", + "tickets": [ + 33973 + ], "ts": 1718373644, - "version": 466 + "version": 466, + "via": "call" }, "allowNib": { + "commit": "ed552b421c0", + "subject": "Fixing hgVai again for gbib, refs #11957 and refs #12717. One problem", + "tickets": [ + 11957, + 12717 + ], "ts": 1396453562, - "version": 297 + "version": 297, + "via": "call" }, "alwaysItemRgb": { + "commit": "ffbb6c9d2c3", + "subject": "always switch on itemRgb by default if alwaysItemRgb is on in hg.conf, refs #28498", + "tickets": [ + 28498 + ], "ts": 1718883805, - "version": 466 + "version": 466, + "via": "call" }, "analytics.trackButtons": { + "commit": "58bdb6ef0be", + "subject": "adding button click tracking to hgTracks, refs #27283", + "tickets": [ + 27283 + ], "ts": 1625574799, - "version": 417 + "version": 417, + "via": "call" }, "analytics.trackClicks": { + "commit": "aff3e9935d8", + "subject": "fix outlink tracking, refs #21916", + "tickets": [ + 21916 + ], "ts": 1615475195, - "version": 411 + "version": 411, + "via": "call" }, "analyticsHostList": { + "commit": "ca7986770a9", + "subject": "Fixup usage of htmlEnd cartEnd to lessen their proliferation and add googleAnalytics", + "tickets": [], "ts": 1210281570, - "version": 181 + "version": 181, + "via": "call" }, "analyticsKey": { + "commit": "ca7986770a9", + "subject": "Fixup usage of htmlEnd cartEnd to lessen their proliferation and add googleAnalytics", + "tickets": [], "ts": 1210281570, - "version": 181 + "version": 181, + "via": "call" }, "apiFromEmail": { + "commit": "440a9e30c2a", + "subject": "using configuration specifications from hg.conf for the email addresses to and from for the chain request refs #31811", + "tickets": [ + 31811 + ], "ts": 1768592697, - "version": 492 + "version": 492, + "via": "call" }, "archivecentral.db": { + "commit": "3a973e6a2c0", + "subject": "Add support for liftover of genome positions. Allow non-current databases in assembly dropdowns.", + "tickets": [], "ts": 1081990199, - "version": null + "version": null, + "via": "call" }, "archivecentral.host": { + "commit": "3a973e6a2c0", + "subject": "Add support for liftover of genome positions. Allow non-current databases in assembly dropdowns.", + "tickets": [], "ts": 1081990199, - "version": null + "version": null, + "via": "call" }, "archivecentral.password": { + "commit": "3a973e6a2c0", + "subject": "Add support for liftover of genome positions. Allow non-current databases in assembly dropdowns.", + "tickets": [], "ts": 1081990199, - "version": null + "version": null, + "via": "call" }, "archivecentral.user": { + "commit": "3a973e6a2c0", + "subject": "Add support for liftover of genome positions. Allow non-current databases in assembly dropdowns.", + "tickets": [], "ts": 1081990199, - "version": null + "version": null, + "via": "call" }, "authTableName": { + "commit": "929bf2136f6", + "subject": "Let auth table name for apiKeys be configued in hg.conf, refs #36428", + "tickets": [ + 36428 + ], "ts": 1759362093, - "version": 488 + "version": 488, + "via": "call" }, "autoBlatBigPsl": { + "commit": "0bae2d58f02", + "subject": "Merging in simplifyBlatAlwaysCreateCT. Uses ajax and hg.conf setting. fixes #32751.", + "tickets": [ + 32751 + ], "ts": 1747717532, - "version": 482 + "version": 482, + "via": "call" + }, + "barbMergePixels": { + "commit": "48886c882e7", + "subject": "hgTracks: merge pixel-adjacent blocks when drawing direction barbs", + "tickets": [ + 37889 + ], + "ts": 1784666288, + "version": 501, + "via": "literal" + }, + "bigBedMaxItems": { + "commit": "cd40e92bef5", + "subject": "limit maxItems to maxItemsPerRow (1,000). Use one million for the", + "tickets": [], + "ts": 1705353483, + "version": 459, + "via": "literal" }, "bigBedOnePath": { + "commit": "ff70fc9c934", + "subject": "one path for bigBed, bigPs, bigGenePred, bigDbSNp. refs #19984", + "tickets": [ + 19984 + ], "ts": 1762212019, - "version": 489 + "version": 489, + "via": "call" + }, + "bigWarn": { + "commit": "61e3dea584f", + "subject": "make sure bigWarn statements end up in the log.", + "tickets": [], + "ts": 1538093483, + "version": 371, + "via": "literal" }, "blatServers": { + "commit": "88485cfa7f1", + "subject": "hgPcr working", + "tickets": [], + "ts": 1607490135, + "version": 408, + "via": "call" + }, + "blatServersTbl": { + "commit": "88485cfa7f1", + "subject": "hgPcr working", + "tickets": [], "ts": 1607490135, - "version": 408 + "version": 408, + "via": "literal" }, "blatShowLocus": { + "commit": "39209bcbf01", + "subject": "show locus name on blat results table, refs #35993", + "tickets": [ + 35993 + ], "ts": 1751289752, - "version": 483 + "version": 483, + "via": "call" }, "blockRtracklayer": { + "commit": "27370697e01", + "subject": "adding cloudflare bot protection, refs #35790", + "tickets": [ + 35790 + ], "ts": 1748382665, - "version": 482 + "version": 482, + "via": "call" }, "bottleneck.except": { + "commit": "0db1b3807a4", + "subject": "improving botDelay to give us control to allow our own robots to run unbottlenecked if desired via hg.conf setting bottl", + "tickets": [], "ts": 1340841914, - "version": 269 + "version": 269, + "via": "call" }, "bottleneck.host": { + "commit": "e0d3d4459af", + "subject": "Making it so that hgBotDelay skips bottleneck if no", + "tickets": [], "ts": 1075568737, - "version": null + "version": null, + "via": "call" }, "bottleneck.port": { + "commit": "e0d3d4459af", + "subject": "Making it so that hgBotDelay skips bottleneck if no", + "tickets": [], "ts": 1075568737, - "version": null + "version": null, + "via": "call" }, "browser.background": { + "commit": "bf73a8d0f37", + "subject": "add hDocumentRoot() option", + "tickets": [], "ts": 1138387183, - "version": 125 + "version": 125, + "via": "call" }, "browser.bgcolor": { + "commit": "6567f4f1e49", + "subject": "added ability to set html backgroud color in hg.conf", + "tickets": [], "ts": 1212268459, - "version": 183 + "version": 183, + "via": "call" + }, + "browser.cgiExpireMinutes": { + "commit": "d282b1c0b5e", + "subject": "implement cgiApoptosis system", + "tickets": [], + "ts": 1306951036, + "version": 251, + "via": "literal" }, "browser.cgiRoot": { + "commit": "85ea6b5bd2d", + "subject": "add hCgiRoot", + "tickets": [], "ts": 1209503202, - "version": 181 + "version": 181, + "via": "call" + }, + "browser.cgiTime": { + "commit": "d43504e6496", + "subject": "add browser.cgiTime option to allow turning off timing information from CGIs, refs #10611", + "tickets": [ + 10611 + ], + "ts": 1366389695, + "version": 282, + "via": "literal" }, "browser.documentRoot": { + "commit": "bf73a8d0f37", + "subject": "add hDocumentRoot() option", + "tickets": [], "ts": 1138387183, - "version": 125 + "version": 125, + "via": "call" }, "browser.dumpStack": { + "commit": "cf54d24bdbd", + "subject": "added option to generate stack dumps when browser errors occur", + "tickets": [], "ts": 1243989251, - "version": 207 + "version": 207, + "via": "call" }, "browser.exportedDataHubs": { + "commit": "8ccceea1c52", + "subject": "added exportedDataHubs dialog and code to deal with quickLifted hubs", + "tickets": [], "ts": 1710276069, - "version": 462 + "version": 462, + "via": "call" }, "browser.geoSuffix": { + "commit": "70d8c69d81d", + "subject": "added support for database-based GUI menu items in Mirror menu. also added support for hg.conf browser.geoSuffix for tes", + "tickets": [], "ts": 1358384453, - "version": 277 + "version": 277, + "via": "call" }, "browser.indelOptions": { + "commit": "89672527a4d", + "subject": "Added routines for indel display options (double-sided gaps, query inserts).", + "tickets": [], "ts": 1172531106, - "version": 152 + "version": 152, + "via": "call" + }, + "browser.javaScriptDir": { + "commit": "fb76972b6e2", + "subject": "change jsIncludeFile to use a new hg.conf setting (browser.javaScriptDir) to support developer specific javascript direc", + "tickets": [], + "ts": 1213046137, + "version": 183, + "via": "literal" }, "browser.node": { + "commit": "58017171c4c", + "subject": "add euronode redirect code (#3104); mostly written by galt with some minor changes by me. Has some debug stuff which wil", + "tickets": [ + 3104 + ], "ts": 1324590647, - "version": 260 + "version": 260, + "via": "call" }, "browser.popularGenomes": { + "commit": "16eee40c920", + "subject": "Adds an hg.conf defined 'popular' species list to the new search bar as a 'default' list of results upon focus of the se", + "tickets": [ + 36232 + ], "ts": 1772565923, - "version": 494 + "version": 494, + "via": "call" }, "browser.quickLift": { + "commit": "6823728f163", + "subject": "ongoing work on quickLift. Added support for SQL beds", + "tickets": [], "ts": 1739736793, - "version": 477 + "version": 477, + "via": "call" }, "browser.recTrackSets": { + "commit": "bd6e3996c72", + "subject": "Add hg.conf var to enable Recommended Track Sets. 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