sgsMaster

• 

  Rob Sargent <rsargent@xmission.com> 20 Nov 2023 e555a52b17d7ed04a688550dfb30e60e9d242dc2 m

  inching towards not needing genoPrepQC.sh

  • handbook.org (version e555a52b17d7ed04a688550dfb30e60e9d242dc2)
  • handbook.pdf (version e555a52b17d7ed04a688550dfb30e60e9d242dc2)
• 

  Rob Sargent <rsargent@xmission.com> 12 Nov 2023 eb3ae8e4f743b888f3b3bad4ca5c69b8bc83953a m

  cooler waiter

  • jooq/src/main/resources/db/scripts/applyVersion.sh (version eb3ae8e4f743b888f3b3bad4ca5c69b8bc83953a)
• 

  Rob Sargent 12 Nov 2023 6afbeabe9d0a7894596c8d6cc11c85b762f09b2f m

  add "language" to some src blocks (might be v25 emacsism)

  • handbook.org (version 6afbeabe9d0a7894596c8d6cc11c85b762f09b2f)
• 

  Rob Sargent <rsargent@xmission.com> 20 Oct 2023 fa11473aa5ac7f7a314b2ff2d8755bb24665439b m

  add people to genotype query

  • webapp/src/main/java/edu/utah/camplab/servlet/PedfileServlet.java (version fa11473aa5ac7f7a314b2ff2d8755bb24665439b)
• 

  Rob Sargent 20 Oct 2023 8f061c7c2f3f2cd03f79fde3271c23cedbd745e8 m

  groups not peoples

  • jooq/src/main/resources/db/scripts/functions/genomePvalueMono.sql (version 8f061c7c2f3f2cd03f79fde3271c23cedbd745e8)
• 

  Rob Sargent 20 Oct 2023 cab3f2c71d29679d01f9405bb4f5b902b188a3b0 m

  un-duplicate process write

  • jooq/src/main/resources/db/scripts/functions/genomeOptimalsetMono.sql (version cab3f2c71d29679d01f9405bb4f5b902b188a3b0)
• 

  Rob Sargent 13 Oct 2023 009243a9873bf23db332b886fe34a7cd79b4872a m

  catch up with lab
• 

  Rob Sargent <rsargent@xmission.com> 11 Oct 2023 d8ebdf07fef3da48c6e4eb399b60e4ae5fb36d8f m

  incoming!
• 

  Rob Sargent <rsargent@xmission.com> 11 Oct 2023 90dcaa60efc3e8ba82e6ab16f3510d353dd60996 m

  should this be here, really?

  • handbook.pdf (version 90dcaa60efc3e8ba82e6ab16f3510d353dd60996)
• 

  Rob Sargent <rsargent@xmission.com> 11 Oct 2023 0f3452c4c08cd026e20bc48c7ff6a0c75547834d m

  report db port

  • webapp/src/main/java/edu/utah/camplab/servlet/MonitorServlet.java (version 0f3452c4c08cd026e20bc48c7ff6a0c75547834d)
• 

  Rob Sargent <rsargent@xmission.com> 11 Oct 2023 9f00b02e520d9e38e36f6ed0ddfb3e08f33bc07c m

  whitespace

  • sgsaas/src/main/java/edu/utah/camplab/app/PedParLoader.java (version 9f00b02e520d9e38e36f6ed0ddfb3e08f33bc07c)
• 

  Rob Sargent <rsargent@xmission.com> 11 Oct 2023 272ce3d67bda050b6e860bc0afbfa2e6e6505911 m

  CHPC project management

  • handbook.org (version 272ce3d67bda050b6e860bc0afbfa2e6e6505911)
• 

  Rob Sargent <rsargent@xmission.com> 11 Oct 2023 1703b15f65b733e81f6d47a2bdc46383680db500 m

  upgraded tomcat

  • build.gradle (version 1703b15f65b733e81f6d47a2bdc46383680db500)
• 

  Rob Sargent 10 Sep 2023 a73cbee8fce135a7f01849c391c55b998359998b m

  git cannot merge
• 

  Rob Sargent 10 Sep 2023 103f70603f944c2b7ad335f7483f924962fe38eb m

  name typo'd

  • sgsaas/src/main/resources/db/scripts/functions/cytofinder.sql (version 103f70603f944c2b7ad335f7483f924962fe38eb)
• 

  Rob Sargent 10 Sep 2023 2d7c93fe2ff785baffa403883ac5596f5ac1a864 m

  add function base.show_gt

  • jooq/src/main/resources/db/scripts/functions/showSegmentCalls.sql (version 2d7c93fe2ff785baffa403883ac5596f5ac1a864)
• 

  Rob Sargent 10 Sep 2023 025fc2f2d4227e142ac4ba00516818014f19657e m

  use coalesce on build-number columns:  but should 38 be first tested?

  • jooq/src/main/resources/db/scripts/functions/chaseSegmentReduced.sql (version 025fc2f2d4227e142ac4ba00516818014f19657e)
• 

  Myke Madsen 27 Jun 2023 f5dfe98e4b08978917328a102cceac6603568c65 m

  Merge branch 'master' of gitlab.com:camplab/sgs
• 

  Rob Sargent <rsargent@xmission.com> 27 Jun 2023 701c97dfe88aabfa5edc7414c75108f95726b8a6 m

  an check-in test

  • handbook.org (version 701c97dfe88aabfa5edc7414c75108f95726b8a6)
• 

  Myke Madsen 27 Jun 2023 b43a8fd9aa1786c8a81a371a6bcda34548061e6c m

  Minor typo

  • SGS_Documentation.docx (version b43a8fd9aa1786c8a81a371a6bcda34548061e6c)
• 

  Rob Sargent <rsargent@xmission.com> 22 May 2023 bc69572acb38a2077d978963db6eb06c94323e85 m

  spell-check, what a concept

  • handbook.org (version bc69572acb38a2077d978963db6eb06c94323e85)
  • handbook.pdf (version bc69572acb38a2077d978963db6eb06c94323e85)
• 

  Rob Sargent <rsargent@xmission.com> 22 May 2023 05c1cda5d1e183bd59e60d77f9afd1acaccb35a1 m

  CHPC tomcat points

  • handbook.org (version 05c1cda5d1e183bd59e60d77f9afd1acaccb35a1)
  • handbook.pdf (version 05c1cda5d1e183bd59e60d77f9afd1acaccb35a1)
• 

  Rob Sargent <rsargent@xmission.com> 22 May 2023 77e28f537e625f2f36fa3234c702d82b2a703805 m

  move past CVE-2023-24998

  • build.gradle (version 77e28f537e625f2f36fa3234c702d82b2a703805)
• 

  Rob Sargent <rsargent@xmission.com> 22 May 2023 5f7a4471eda5d4277731c7bc2ce3bd1165bbe5d9 m

  add reference for topmed

  • handbook.org (version 5f7a4471eda5d4277731c7bc2ce3bd1165bbe5d9)
  • handbook.pdf (version 5f7a4471eda5d4277731c7bc2ce3bd1165bbe5d9)
• 

  Rob Sargent <rsargent@xmission.com> 22 May 2023 4212f2affe2451ed0fad80239f1d9d102ee0d8a8 m

  org mode leg up for non-emacs people

  • README.txt (version 4212f2affe2451ed0fad80239f1d9d102ee0d8a8)
• 

  Rob Sargent <rsargent@xmission.com> 27 Mar 2023 7a071dfb58a640cc957a389098f82f1dc2d3013b m

  using "localhost" as stand-in for db server name, as previous value might be taken literally

  • handbook.org (version 7a071dfb58a640cc957a389098f82f1dc2d3013b)
  • handbook.pdf (version 7a071dfb58a640cc957a389098f82f1dc2d3013b)
• 

  Rob Sargent <rsargent@xmission.com> 27 Mar 2023 0903fba50c33a7b986c25f7592b50865b6cdbddf m

  swapped two values

  • sgsaas/src/main/java/edu/utah/camplab/sgs/SGSMultiAssess.java (version 0903fba50c33a7b986c25f7592b50865b6cdbddf)
• 

  Rob Sargent <rsargent@xmission.com> 12 Feb 2023 0f54975e205a4ee36a832123ed1afddba731da2a m

  really need other eyes

  • handbook.org (version 0f54975e205a4ee36a832123ed1afddba731da2a)
  • handbook.pdf (version 0f54975e205a4ee36a832123ed1afddba731da2a)
• 

  Rob Sargent <rsargent@xmission.com> 09 Feb 2023 2a51e17c23530cbef291123f5f8f6e3edaf930c0 m

  shouldn't be here

  • README.tex (version 2a51e17c23530cbef291123f5f8f6e3edaf930c0)
• 

  Rob Sargent <rsargent@xmission.com> 09 Feb 2023 577d0e32c30785aa0aa9b0837813782d16fb633f m

  adding the derivative - some clever person should automate its production

  • handbook.pdf (version 577d0e32c30785aa0aa9b0837813782d16fb633f)
• 

  Rob Sargent <rsargent@xmission.com> 09 Feb 2023 2e8bac3b13618329235214191a0cbd8a2f758665 m

  clean ups

  • handbook.org (version 2e8bac3b13618329235214191a0cbd8a2f758665)
• 

  Rob Sargent <rsargent@xmission.com> 09 Feb 2023 22d94bf4f3ac24560495e2b108da5440a0818d6b m

  ok for now, not sure about keeping pdf, txt versions

  • README.org (version 22d94bf4f3ac24560495e2b108da5440a0818d6b)
• 

  Rob Sargent <rsargent@xmission.com> 09 Feb 2023 160cb0fd0d5094516dec979faa4b09bdf5d80718 m

  present these versions

  • README.pdf (version 160cb0fd0d5094516dec979faa4b09bdf5d80718)
  • README.tex (version 160cb0fd0d5094516dec979faa4b09bdf5d80718)
• 

  Rob Sargent <rsargent@xmission.com> 08 Feb 2023 af6f058783497108d9888442d333c29d18b859dd m

  whitespace (table)

  • handbook.org (version af6f058783497108d9888442d333c29d18b859dd)
• 

  Rob Sargent <rsargent@xmission.com> 08 Feb 2023 9b9668e29c5df314ddc8cd155902fefa012e5246 m

  pix for the handbook

  • SGS-AWS-V6.diagram.png (version 9b9668e29c5df314ddc8cd155902fefa012e5246)
  • chpcTopology.png (version 9b9668e29c5df314ddc8cd155902fefa012e5246)
• 

  Rob Sargent <rsargent@xmission.com> 08 Feb 2023 faad35a0c015bd156bfb77eb180dce1b87d5ada2 m

  details on deploying, running SGS

  • handbook.org (version faad35a0c015bd156bfb77eb180dce1b87d5ada2)
• 

  Rob Sargent <rsargent@xmission.com> 07 Feb 2023 b3405a12ff721be067760f3309986ac2f9b65cb3 m

  Add third output file arg for the allele descriptions (Should force all files to be required)

  • sgsaas/src/main/java/edu/utah/camplab/app/DownCodeAlleles.java (version b3405a12ff721be067760f3309986ac2f9b65cb3)
• 

  Rob Sargent <rsargent@xmission.com> 28 Nov 2022 46b5850a7f06d35e25c2a52da431557dd8df0e88 m

  get current connects to the monitor page

  • webapp/src/main/java/edu/utah/camplab/servlet/AbstractSGSServlet.java (version 46b5850a7f06d35e25c2a52da431557dd8df0e88)
  • webapp/src/main/java/edu/utah/camplab/servlet/MonitorServlet.java (version 46b5850a7f06d35e25c2a52da431557dd8df0e88)
• 

  Rob Sargent <rsargent@xmission.com> 28 Nov 2022 2ef39a9538d8fa2a5be44cddaa168c1e6ed719f2 m

  fix to tomcat 9.0.69; add publish target

  • build.gradle (version 2ef39a9538d8fa2a5be44cddaa168c1e6ed719f2)
• 

  Rob Sargent <rsargent@xmission.com> 22 Nov 2022 3a0fa3328d118a41acaec4b920bf1d9934efcc05 m

  wishful thinking at this point

  • webapp/src/main/java/edu/utah/camplab/servlet/MonitorServlet.java (version 3a0fa3328d118a41acaec4b920bf1d9934efcc05)
• 

  Rob Sargent <rsargent@xmission.com> 22 Nov 2022 823a64df4f70ad34281542931a0e41e57025865f m

  wishful thinking at this point

  • webapp/src/main/java/edu/utah/camplab/servlet/AbstractSGSServlet.java (version 823a64df4f70ad34281542931a0e41e57025865f)
• 

  Rob Sargent <rsargent@xmission.com> 22 Nov 2022 d42cffbb31fbdda587fbd820d1692b134df387b1 m

  annoyance

  • webapp/build.gradle (version d42cffbb31fbdda587fbd820d1692b134df387b1)
• 

  Rob Sargent <rsargent@xmission.com> 22 Nov 2022 572ca2e83fef2401cccebb6e8e02861404a2aac4 m

  now shutdown hook aware

  • sgsaas/src/main/java/edu/utah/camplab/sgs/SGSChase.java (version 572ca2e83fef2401cccebb6e8e02861404a2aac4)
• 

  Rob Sargent <rsargent@xmission.com> 22 Nov 2022 00f0c4f43dd3dd433d31efae35cffff9afe8451b m

  remove commented code

  • sgsaas/src/main/java/edu/utah/camplab/sgs/LITuple.java (version 00f0c4f43dd3dd433d31efae35cffff9afe8451b)
• 

  Rob Sargent <rsargent@xmission.com> 22 Nov 2022 ccbea503d4fb477d5729cf21255050641b99e501 m

  remove commented code

  • sgsaas/src/main/java/edu/utah/camplab/sgs/DropEvaluation.java (version ccbea503d4fb477d5729cf21255050641b99e501)
• 

  Rob Sargent <rsargent@xmission.com> 22 Nov 2022 9c0067727f542021ccee8790cb36664e48619194 m

  SGSDEV env

  • sgsaas/src/main/java/edu/utah/camplab/sgs/AbstractSGSOptions.java (version 9c0067727f542021ccee8790cb36664e48619194)
• 

  Rob Sargent <rsargent@xmission.com> 22 Nov 2022 55964e4d06f2533ee9975eb8ee68f30f37a95c20 m

  trying "sgsdev" environment

  • sgsaas/runs.gradle (version 55964e4d06f2533ee9975eb8ee68f30f37a95c20)
• 

  Rob Sargent <rsargent@xmission.com> 22 Nov 2022 e0f34c840a08e624b630c0cbdb4784952c5016bc m

  corrected table name (one less underscore)

  • jooq/src/main/resources/db/scripts/functions/interestingSegmets.sql (version e0f34c840a08e624b630c0cbdb4784952c5016bc)
• 

  Rob Sargent <rsargent@xmission.com> 22 Nov 2022 9ba41f0904931fff3846059745147a9e327f8088 m

  new versions of tomcat, postgres jdbc

  • build.gradle (version 9ba41f0904931fff3846059745147a9e327f8088)
• 

  Rob Sargent <rsargent@xmission.com> 21 Nov 2022 4b169ce97717468e33fa906f0741a008cb7e8fff m

  shutdown hook for Chase

  • sgsaas/src/main/java/edu/utah/camplab/sgs/SGSShutdownHandler.java (version 4b169ce97717468e33fa906f0741a008cb7e8fff)
• 

  Rob Sargent <rsargent@xmission.com> 04 Nov 2022 e5e79f47fd1b30fffc3e05a07225befc1d2e4d0b m

  SGSDB-227: rework unique jndi lookup per study/PI

  • webapp/src/main/java/edu/utah/camplab/servlet/AbstractSGSServlet.java (version e5e79f47fd1b30fffc3e05a07225befc1d2e4d0b)
• 

  Rob Sargent <rsargent@xmission.com> 04 Nov 2022 71f10aca4a82179eddcdb956d0becad49397f26f m

  pull from Utah
• 

  Rob Sargent <rsargent@xmission.com> 04 Nov 2022 c3f457652d6fc342c12ec97155de8767734a3033 m

  better help call

  • sgsaas/runs.gradle (version c3f457652d6fc342c12ec97155de8767734a3033)
• 

  Rob Sargent 04 Nov 2022 84586b253d9c75b72ef4baba4866f08522453391 m

  sql updates from home; alt CHCP interm dir
• 

  Rob Sargent 04 Nov 2022 c9ec7fb51a1650ddd4bb094c2296a062e9fa8da3 m

  SGSDB-224: added specific jndi-template; loop throug all studies

  • sgsaas/src/main/resources/bin/context.awk (version c9ec7fb51a1650ddd4bb094c2296a062e9fa8da3)
  • webapp/src/main/webapp/META-INF/resource-template.xml (version c9ec7fb51a1650ddd4bb094c2296a062e9fa8da3)
• 

  Rob Sargent 03 Nov 2022 e0e6c8f273e71a2c9986bbf8c5be17fc00263641 m

  syntax matters, after all

  • jooq/src/main/resources/db/scripts/functions/descend.sql (version e0e6c8f273e71a2c9986bbf8c5be17fc00263641)
• 

  Rob Sargent 03 Nov 2022 118ef7271713852412063df76182b849bd2470cd m

  add locusedit, tell no-one

  • jooq/src/main/resources/db/scripts/functions/showSegmentCalls.sql (version 118ef7271713852412063df76182b849bd2470cd)
• 

  Rob Sargent 03 Nov 2022 75f9051dc7d79856ce7be332f971573a7ef4798e m

  un-hide a member variable, jsonFile in load(f)

  • sgsaas/src/main/java/edu/utah/camplab/app/LoadCrashpadJson.java (version 75f9051dc7d79856ce7be332f971573a7ef4798e)
• 

  Rob Sargent <rsargent@xmission.com> 22 Jul 2022 3eff5202129a541c510daf545dc45fac23eedd0a m

  git cannot merge
• 

  Rob Sargent <rsargent@xmission.com> 22 Jul 2022 a95f930a9b5e644bcd4e3b76d83713e8b3042691 m

  needed for hcipipeline

  • tools/src/main/java/edu/utah/camplab/tools/CHPCInterimFileManager.java (version a95f930a9b5e644bcd4e3b76d83713e8b3042691)
• 

  Rob Sargent <rsargent@xmission.com> 22 Jul 2022 2098c2db2d6a12cf06adefe0ff6d727aa9420acc m

  inputs and args: WIP

  • jooq/src/main/resources/db/scripts/functions/genomeOptimalsetMono.sql (version 2098c2db2d6a12cf06adefe0ff6d727aa9420acc)
  • jooq/src/main/resources/db/scripts/functions/genomeOptimalsetMultiFixed.sql (version 2098c2db2d6a12cf06adefe0ff6d727aa9420acc)
• 

  Rob Sargent <rsargent@xmission.com> 15 Jul 2022 e1444b243a3b9e4713c0201aea07c87146aa3d93 m

  changes harvested from AWS

  • jooq/src/main/resources/db/scripts/functions/genomeFisherFixed.sql (version e1444b243a3b9e4713c0201aea07c87146aa3d93)
  • jooq/src/main/resources/db/scripts/functions/genomeOptimalsetMulti.sql (version e1444b243a3b9e4713c0201aea07c87146aa3d93)
  • jooq/src/main/resources/db/scripts/functions/genomeOptimalsetMultiFixed.sql (version e1444b243a3b9e4713c0201aea07c87146aa3d93)
  • jooq/src/main/resources/db/scripts/functions/getGtSegment.sql (version e1444b243a3b9e4713c0201aea07c87146aa3d93)
  • jooq/src/main/resources/db/scripts/functions/showSegmentCalls.sql (version e1444b243a3b9e4713c0201aea07c87146aa3d93)
• 

  Rob Sargent 29 Jun 2022 3472f57b588e00e5a04de2f403b2f958f691b91c m

  why oh why
• 

  Rob Sargent <rsargent@xmission.com> 29 Jun 2022 3fa7176f0fd3fb1f8819108dd8214d60c71c6485 m

  encode gts for output

  • jooq/src/main/resources/db/scripts/functions/showSegmentCalls.sql (version 3fa7176f0fd3fb1f8819108dd8214d60c71c6485)
• 

  Rob Sargent 29 Jun 2022 166411a58aad65491ceffccee8945c321c60ca0b m

  git cannot merge worth shit
• 

  Rob Sargent 29 Jun 2022 8fb8229b7278399c26814d6b76c4e8efb579cc09 m

  push proc to later

  • jooq/src/main/resources/db/scripts/functions/genomeOptimalsetMono.sql (version 8fb8229b7278399c26814d6b76c4e8efb579cc09)
• 

  Rob Sargent <rsargent@xmission.com> 19 Jun 2022 923b8faa875df909d84c4f951162ce7a2bbb30d8 m

  column-per-line attritude

  • jooq/src/main/resources/db/scripts/functions/genomePvalueDuo.sql (version 923b8faa875df909d84c4f951162ce7a2bbb30d8)
• 

  Rob Sargent <rsargent@xmission.com> 19 Jun 2022 d3681ca51ed268d27789d4561cdc60382b4a772f m

  nicer whitespace

  • jooq/src/main/resources/db/scripts/functions/optimalMultiPed.sql (version d3681ca51ed268d27789d4561cdc60382b4a772f)
• 

  Rob Sargent <rsargent@xmission.com> 30 May 2022 3dbe93a184ff506293a57103476367f9eabade6b m

  array has public /length/ element

  • sgsaas/src/main/java/edu/utah/camplab/app/PedParLoader.java (version 3dbe93a184ff506293a57103476367f9eabade6b)
• 

  Rob Sargent <rsargent@xmission.com> 30 May 2022 85f268c8265aba163a39e464eff110e628f97d47 m

  new migration, bump db version

  • jooq/src/main/java/edu/utah/camplab/db/generated/base/Base.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/Indexes.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/Keys.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/Routines.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/Tables.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/routines/WorklistFill.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/Alias.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/Cytoband.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/Definer.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/Definervalue.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/Definerview.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/GenomeMarkerset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/LdClique.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/Marker.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/Markerset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/MarkersetMember.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/Migration.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/People.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/PeopleMember.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/Person.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/Alias.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/Cytoband.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/Definer.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/Definervalue.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/Definerview.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/GenomeMarkerset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/LdClique.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/Marker.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/Markerset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/MarkersetMember.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/Migration.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/People.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/PeopleMember.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/pojos/Person.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/AliasRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/CytobandRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/DefinerRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/DefinervalueRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/DefinerviewRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/GenomeMarkersetRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/LdCliqueRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/MarkerRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/MarkersetMemberRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/MarkersetRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/MigrationRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/PeopleMemberRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/PeopleRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/base/tables/records/PersonRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/DefaultSchema.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/Indexes.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/Keys.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/Routines.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/Tables.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/routines/Pvr.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/Chaseable.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/DuoChaseable.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/Genotype.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/Optimalset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/OptimalsetDuosegment.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/OptimalsetSegment.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/Probandset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/ProbandsetGroup.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/ProbandsetGroupMember.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/Process.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/ProcessArg.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/ProcessInput.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/ProcessOutput.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/Projectfile.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/Segment.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/Segmentset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/Chaseable.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/DuoChaseable.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/Genotype.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/Optimalset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/OptimalsetDuosegment.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/OptimalsetSegment.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/Probandset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/ProbandsetGroup.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/ProbandsetGroupMember.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/Process.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/ProcessArg.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/ProcessInput.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/ProcessOutput.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/Projectfile.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/Segment.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/pojos/Segmentset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/ChaseableRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/DuoChaseableRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/GenotypeRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/OptimalsetDuosegmentRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/OptimalsetRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/OptimalsetSegmentRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/ProbandsetGroupMemberRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/ProbandsetGroupRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/ProbandsetRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/ProcessArgRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/ProcessInputRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/ProcessOutputRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/ProcessRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/ProjectfileRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/SegmentRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/default_schema/tables/records/SegmentsetRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/Indexes.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/Keys.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/Public.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/Routines.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/Tables.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/Addprobandset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/AliasDefiners.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/Byteasub.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/ChaseSegmentReduced.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/Cytofinder.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/Duopv.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/Extendpeople.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/GenomeOptimalsetMono.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/GenomeOptimalsetResult.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/GenomeOptimalsetSmooth.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/GenomeThresholdMulti.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/IdsetLookup.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/Issorteduuids.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/NamesetLookup.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/Pv.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/PvLower95.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/PvUpper95.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/RandPv.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/RemovePeople.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/RollbackMa.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/ThresholdProcess.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/UuidGenerateV1.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/UuidGenerateV1mc.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/UuidGenerateV3.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/UuidGenerateV4.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/UuidGenerateV5.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/UuidNil.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/UuidNsDns.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/UuidNsOid.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/UuidNsUrl.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/UuidNsX500.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/WilsonCi.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/routines/WorklistFill.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/Ascend.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/AscendAll.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/AscendTrim.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/AscendTrimlite.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/ChaseSegmentFinder.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/Descend.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/DescendWide.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/FlywaySchemaHistory.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/GenomeFisherFixed.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/GenomePvalueDuo.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/GenomePvalueMono.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/GetgtMarkers.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/GetgtSegment.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/InterestingSegments.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/OptimalPvalueMono.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/OptimalPvalueMped.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/Powerset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/SegmentCalls.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/Ascend.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/AscendAll.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/AscendTrim.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/AscendTrimlite.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/ChaseSegmentFinder.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/Descend.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/DescendWide.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/FlywaySchemaHistory.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/GenomeFisherFixed.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/GenomePvalueDuo.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/GenomePvalueMono.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/GetgtMarkers.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/GetgtSegment.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/InterestingSegments.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/OptimalPvalueMono.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/OptimalPvalueMped.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/Powerset.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/pojos/SegmentCalls.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/AscendAllRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/AscendRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/AscendTrimRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/AscendTrimliteRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/ChaseSegmentFinderRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/DescendRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/DescendWideRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/FlywaySchemaHistoryRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/GenomeFisherFixedRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/GenomePvalueDuoRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/GenomePvalueMonoRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/GetgtMarkersRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/GetgtSegmentRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/InterestingSegmentsRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/OptimalPvalueMonoRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/OptimalPvalueMpedRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/PowersetRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
  • jooq/src/main/java/edu/utah/camplab/db/generated/public_/tables/records/SegmentCallsRecord.java (version 85f268c8265aba163a39e464eff110e628f97d47)
• 

  Rob Sargent <rsargent@xmission.com> 30 May 2022 21bd0f8a7b0d071dbd625e70674a922a018f4d8e m

  return the fork-join assessAll to Mux executor

  • sgsaas/src/main/java/edu/utah/camplab/sgs/SGSMultiAssess.java (version 21bd0f8a7b0d071dbd625e70674a922a018f4d8e)
• 

  Rob Sargent <rsargent@xmission.com> 30 May 2022 9bd81c0ea2cf751021effd2eb8066be75f64b029 m

  readKnowPersons now not vulnerable to single case in more than two pedigrees

  • sgsaas/src/main/java/edu/utah/camplab/app/PedParLoader.java (version 9bd81c0ea2cf751021effd2eb8066be75f64b029)
• 

  Rob Sargent <rsargent@xmission.com> 30 May 2022 a79689cef03dbeb1aa8318cdacb1ddd8bc906ee8 m

  initialize the migration table

  • jooq/src/main/resources/db/scripts/createInvestigator.sh (version a79689cef03dbeb1aa8318cdacb1ddd8bc906ee8)
• 

  Rob Sargent <rsargent@xmission.com> 25 May 2022 f7542f50da54db430c118c766cec6655c5c47464 m

  added distinct to alias fetch; overlapping peds are a pain

  • sgsaas/src/main/java/edu/utah/camplab/app/PedParLoader.java (version f7542f50da54db430c118c766cec6655c5c47464)
• 

  Rob Sargent <rsargent@xmission.com> 25 May 2022 fe9a07a9787d9cc0267fc37bc3ad691f3fe4c0be m

  timestamp, loop number instead of dots (for a while at least)

  • sgsaas/src/main/java/edu/utah/camplab/app/FitGMLD.java (version fe9a07a9787d9cc0267fc37bc3ad691f3fe4c0be)
• 

  Rob Sargent <rsargent@xmission.com> 25 May 2022 96297764069c0624a60fe23760277d8f9685917a m

  set the baseline version

  • jooq/src/main/resources/db/scripts/createInvestigator.sh (version 96297764069c0624a60fe23760277d8f9685917a)
• 

  Rob Sargent <rsargent@xmission.com> 25 May 2022 330812da84989869baebd942c2670982ffc949f1 m

  there doesn't seem to be one to add migration table, preping for bringing camp db forward

  • jooq/src/main/resources/db/migration/base/V5002__maybeAddMigrationTable.sql (version 330812da84989869baebd942c2670982ffc949f1)
• 

  Rob Sargent <rsargent@xmission.com> 25 May 2022 d414f1edec028a112a2049c3654d9ebd3df8236b m

  incr build #; new jps

  • build.gradle (version d414f1edec028a112a2049c3654d9ebd3df8236b)
• 

  Rob Sargent <rsargent@xmission.com> 20 May 2022 c57fc49e470f43380d7725b52b7ebc151712a7a7 m

  need to report each loop, not every 10th

  • sgsaas/src/main/java/edu/utah/camplab/app/FitGMLD.java (version c57fc49e470f43380d7725b52b7ebc151712a7a7)
• 

  Rob Sargent <rsargent@xmission.com> 20 May 2022 574f94782de39457c9d4fc4419fe56ba9659a14e m

  now controlling version number from central .properties file across multiple projects

  • build.gradle (version 574f94782de39457c9d4fc4419fe56ba9659a14e)
• 

  Rob Sargent 19 May 2022 5f94ed61d5980323f032a8acb5668691a91117b4 m

  Merge branch 'chaser' into 'master'
  Chaser
  
  See merge request camplab/sgs!25
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 100fc869f9245444940882154c0fe7ec6ae73c35 m

  add millis to 10-loop report

  • sgsaas/src/main/java/edu/utah/camplab/app/FitGMLD.java (version 100fc869f9245444940882154c0fe7ec6ae73c35)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 d50d33938eefca513eb680c0f5ec0a0e8ca59941 m

  rename originalSims to requestedSims

  • sgsaas/src/main/java/edu/utah/camplab/sgs/SGSMultiAssess.java (version d50d33938eefca513eb680c0f5ec0a0e8ca59941)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 77084320a054c62bdd3090992f54ecb621ae36ab m

  replacing dots with info on position

  • sgsaas/src/main/java/edu/utah/camplab/app/FitGMLD.java (version 77084320a054c62bdd3090992f54ecb621ae36ab)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 b9ee4f51bf00d3b82ea23c073cc531f78f7ec1a0 m

  send in "valve" file name

  • sgsaas/src/main/resources/bin/context.awk (version b9ee4f51bf00d3b82ea23c073cc531f78f7ec1a0)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 7526ac8c274b274de371053824b90d14f0d88750 m

  saner test for same segment, but weak

  • sgsaas/src/main/java/edu/utah/camplab/sgs/SharingRun.java (version 7526ac8c274b274de371053824b90d14f0d88750)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 11d96f1791d403fc4794a0aba14091c6a711f833 m

  nuisance

  • sgsaas/src/main/java/edu/utah/camplab/sgs/SGSCaseVsControl.java (version 11d96f1791d403fc4794a0aba14091c6a711f833)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 0cf8e20d35fc08f636b85c9140c548cfb74863d1 m

  lose one main

  • sgsaas/src/main/java/edu/utah/camplab/sgs/DropEvaluation.java (version 0cf8e20d35fc08f636b85c9140c548cfb74863d1)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 671318cec420e41da1eb8e858ca00c07e2f604ed m

  better starting point for nsims

  • sgsaas/src/main/java/edu/utah/camplab/sgs/AbstractSGSRun.java (version 671318cec420e41da1eb8e858ca00c07e2f604ed)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 03ad9a8ec081a5f79f4c8bbe5f50cc4cf72d4e9d m

  fallout from renaming SGSRun to SGSChase

  • sgsaas/src/main/java/edu/utah/camplab/app/SGSPValue.java (version 03ad9a8ec081a5f79f4c8bbe5f50cc4cf72d4e9d)
  • sgsaas/src/test/java/TestReduceChromosome.java (version 03ad9a8ec081a5f79f4c8bbe5f50cc4cf72d4e9d)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 1af7617d81cc128f767220c4abc78291138944c1 m

  no more "old style" check for still interesting

  • sgsaas/src/main/java/edu/utah/camplab/sgs/MultiAssessExecutor.java (version 1af7617d81cc128f767220c4abc78291138944c1)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 bcc92d794b39357be61fa1c9a959caed1b91da2f m

  renaming SGSRun SGSChase

  • sgsaas/src/main/java/edu/utah/camplab/sgs/SGSRun.java (version bcc92d794b39357be61fa1c9a959caed1b91da2f)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 a3c1a878d7184294959304ec2051ac27dd957653 m

  renaming SGSRun SGSChase

  • sgsaas/src/main/java/edu/utah/camplab/sgs/SGSChase.java (version a3c1a878d7184294959304ec2051ac27dd957653)
  • sgsaas/src/main/java/edu/utah/camplab/sgs/SGSMultiAssess.java (version a3c1a878d7184294959304ec2051ac27dd957653)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 49b3a0fb6690452ac51bc148bd306f3a40781734 m

  whitespace

  • sgsaas/src/main/java/edu/utah/camplab/app/PedParLoader.java (version 49b3a0fb6690452ac51bc148bd306f3a40781734)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 518a1f3244bd1ca326d6130ff4ecd0970527d04f m

  chase 1 and 0 sims

  • sgsaas/runs.gradle (version 518a1f3244bd1ca326d6130ff4ecd0970527d04f)
• 

  Rob Sargent <rsargent@xmission.com> 19 May 2022 dfe6588a2507b62d3b4076fe40f4df199bdba06d m

  nail down tomcat 9.0.63

  • build.gradle (version dfe6588a2507b62d3b4076fe40f4df199bdba06d)
• 

  Rob Sargent <rsargent@xmission.com> 11 May 2022 127b693538dc15137a0d34b76a90f60e371dcc5b m

  var for PAT

  • build.gradle (version 127b693538dc15137a0d34b76a90f60e371dcc5b)
• 

  Rob Sargent 10 May 2022 5a1b7859a0afae3a8ec7feb67ceecaa2378b7cfa m

  add gitlab token

  • .gitlab-ci.yml (version 5a1b7859a0afae3a8ec7feb67ceecaa2378b7cfa)
• 

  Rob Sargent <rsargent@xmission.com> 10 May 2022 5c468303afb8af6aa4b0921a13b35cf2fd1b5b2e m

  abandon this in favour of ~/.gradle/gradle.properties

  • gradle.properties (version 5c468303afb8af6aa4b0921a13b35cf2fd1b5b2e)
• 

  Rob Sargent <rsargent@xmission.com> 09 May 2022 0d7f3833c8345a2cdd46316e99dfed21a85efd89 m

  add maven repo def for jpsgcs download

  • build.gradle (version 0d7f3833c8345a2cdd46316e99dfed21a85efd89)