From 0f5457640638731ef5e85aa5ffed12d07ff9c2a1 Mon Sep 17 00:00:00 2001
From: varfish-bot <138480089+varfish-bot@users.noreply.github.com>
Date: Fri, 23 Feb 2024 10:17:15 +0100
Subject: [PATCH] chore(main): release 0.1.0

---
 CHANGELOG.md | 172 +++++++++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 172 insertions(+)

diff --git a/CHANGELOG.md b/CHANGELOG.md
index 19b5badfb..be980e81e 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -93,6 +93,178 @@
 - Removing template settings in quality form tab (#825).
 - Removing gene blocklist from vue filter app (#823).
 
+## 0.1.0 (2024-02-23)
+
+
+### Features
+
+* adapt filter frontend to case detail variant annotations ([#1104](https://github.com/varfish-org/varfish-server/issues/1104)) ([#1122](https://github.com/varfish-org/varfish-server/issues/1122)) ([ed0652a](https://github.com/varfish-org/varfish-server/commit/ed0652a32840e050f121ecf46160efca7f796e60))
+* add api endpoints and front end for new qc data ([#1144](https://github.com/varfish-org/varfish-server/issues/1144)) ([#1146](https://github.com/varfish-org/varfish-server/issues/1146)) ([62416c5](https://github.com/varfish-org/varfish-server/commit/62416c5f0563391387531ac0ab538fa81acdbf9b))
+* add cases_import settings for server to import from ([#1020](https://github.com/varfish-org/varfish-server/issues/1020)) ([#1025](https://github.com/varfish-org/varfish-server/issues/1025)) ([b7b5f4c](https://github.com/varfish-org/varfish-server/commit/b7b5f4cbc2ed96b1b369a957cc910b0c8ea4af39))
+* add export for filter results to vue app ([#866](https://github.com/varfish-org/varfish-server/issues/866)) ([#876](https://github.com/varfish-org/varfish-server/issues/876)) ([33755d9](https://github.com/varfish-org/varfish-server/commit/33755d9b314aa2e65ee18641bac76b4b7b7425dc))
+* add genome browser to case details and sv modal ([#852](https://github.com/varfish-org/varfish-server/issues/852)) ([#853](https://github.com/varfish-org/varfish-server/issues/853)) ([28988cd](https://github.com/varfish-org/varfish-server/commit/28988cdfa1525957ba7b1621972c0051fe204027))
+* add seqmeta app to store available enrichment kits ([#19](https://github.com/varfish-org/varfish-server/issues/19)) ([#976](https://github.com/varfish-org/varfish-server/issues/976)) ([a0a6cfb](https://github.com/varfish-org/varfish-server/commit/a0a6cfb7affd43275fd46eb197f1592ecab05327))
+* add shortcut buttons for marking strucvars as artifact ([#969](https://github.com/varfish-org/varfish-server/issues/969)) ([#970](https://github.com/varfish-org/varfish-server/issues/970)) ([d9e0b02](https://github.com/varfish-org/varfish-server/commit/d9e0b027ed597e75a0d98fcb2937a24b81db2f66))
+* add support for importing per-case seqvar VCF ([#1048](https://github.com/varfish-org/varfish-server/issues/1048)) ([#1155](https://github.com/varfish-org/varfish-server/issues/1155)) ([f2541e1](https://github.com/varfish-org/varfish-server/commit/f2541e105ae3b9128bb5147ccbe552c106466962))
+* adding cases_qc app with initial support for Dragen QC ([#1136](https://github.com/varfish-org/varfish-server/issues/1136)) ([9792b29](https://github.com/varfish-org/varfish-server/commit/9792b2925d2e56bf4accab5069e8effce25a073f))
+* adding generic browser track capability and repeat tracks ([#857](https://github.com/varfish-org/varfish-server/issues/857)) ([38fcb98](https://github.com/varfish-org/varfish-server/commit/38fcb989c30878b492feb650bf28b45f31555bbc))
+* adding models and APIs for cases_import app ([#1021](https://github.com/varfish-org/varfish-server/issues/1021)) ([#1035](https://github.com/varfish-org/varfish-server/issues/1035)) ([5f847a5](https://github.com/varfish-org/varfish-server/commit/5f847a56894574767fb2059fb843ff4c9e769e43))
+* adding persistent variant annotation ([#1185](https://github.com/varfish-org/varfish-server/issues/1185)) ([#1198](https://github.com/varfish-org/varfish-server/issues/1198)) ([0b428a0](https://github.com/varfish-org/varfish-server/commit/0b428a0b3ae713cccff33969982f16c0a16db85f))
+* Adding presets to gene allowlist in vue filter app ([#824](https://github.com/varfish-org/varfish-server/issues/824)) ([#848](https://github.com/varfish-org/varfish-server/issues/848)) ([e31ee43](https://github.com/varfish-org/varfish-server/commit/e31ee43e94dd0d00d71f0bd1b424ae8787393235))
+* adding support for cramino and ngs-bits QC ([#1141](https://github.com/varfish-org/varfish-server/issues/1141)) ([#1143](https://github.com/varfish-org/varfish-server/issues/1143)) ([5cfec30](https://github.com/varfish-org/varfish-server/commit/5cfec30b824dedd1c26966993a148280e3fc31bf))
+* adding support for importing samtools/bcftools stats ([#1139](https://github.com/varfish-org/varfish-server/issues/1139)) ([#1140](https://github.com/varfish-org/varfish-server/issues/1140)) ([7f03b6e](https://github.com/varfish-org/varfish-server/commit/7f03b6e782e03840bfb5b45b34fe908e7602a45f))
+* allow direct opening of variant details via results table ([#1057](https://github.com/varfish-org/varfish-server/issues/1057))  ([#1081](https://github.com/varfish-org/varfish-server/issues/1081)) ([a7274fb](https://github.com/varfish-org/varfish-server/commit/a7274fb955d136262975bf3d377a919fc74a85f4))
+* allow direct opening of variant details via results table ([#871](https://github.com/varfish-org/varfish-server/issues/871)) ([#1056](https://github.com/varfish-org/varfish-server/issues/1056)) ([1d91727](https://github.com/varfish-org/varfish-server/commit/1d91727ad8bca917c091c764d0d30e889f10fecf))
+* allow sorting by extra annotations ([#1070](https://github.com/varfish-org/varfish-server/issues/1070)) ([#1074](https://github.com/varfish-org/varfish-server/issues/1074)) ([ee2d736](https://github.com/varfish-org/varfish-server/commit/ee2d736c619d683de6ae2cd6b52e0e87d3861e00))
+* allow using secret files for secrets ([#1257](https://github.com/varfish-org/varfish-server/issues/1257)) ([#1258](https://github.com/varfish-org/varfish-server/issues/1258)) ([4ad84ac](https://github.com/varfish-org/varfish-server/commit/4ad84ac3d8d9908cf1bd54438cd3c5912a2e9ad5))
+* AUTH parameters for TLS encrypted LDAP ([#1245](https://github.com/varfish-org/varfish-server/issues/1245)) ([#1246](https://github.com/varfish-org/varfish-server/issues/1246)) ([9b5d507](https://github.com/varfish-org/varfish-server/commit/9b5d507c581058ab8a5f5809173ca830f45af108))
+* bootstrapping cases_import app ([#1019](https://github.com/varfish-org/varfish-server/issues/1019)) ([#1024](https://github.com/varfish-org/varfish-server/issues/1024)) ([e7d317e](https://github.com/varfish-org/varfish-server/commit/e7d317e7376c11b850339797a54720343b90a494))
+* bring over small variant details changes to SVs ([#1089](https://github.com/varfish-org/varfish-server/issues/1089)) ([#1090](https://github.com/varfish-org/varfish-server/issues/1090)) ([56761c8](https://github.com/varfish-org/varfish-server/commit/56761c8c542a609985aa2c6a7d92177d79d8711a))
+* bump storybook version to 7 ([#1091](https://github.com/varfish-org/varfish-server/issues/1091)) ([#1095](https://github.com/varfish-org/varfish-server/issues/1095)) ([bfec8a8](https://github.com/varfish-org/varfish-server/commit/bfec8a8cecefb3aab3970e904c800a9ae4c0aa72))
+* bump varfish server worker version to 0.5.0 (887) ([#888](https://github.com/varfish-org/varfish-server/issues/888)) ([afc4baf](https://github.com/varfish-org/varfish-server/commit/afc4baf0bfa27b7fbb0cae9e0eca08b60cddc4fe))
+* bumping varfish-server-worker ([#899](https://github.com/varfish-org/varfish-server/issues/899)) ([#904](https://github.com/varfish-org/varfish-server/issues/904)) ([a640fea](https://github.com/varfish-org/varfish-server/commit/a640feaf4f6e751ce910f4018954b40f79247198))
+* change label of final causativereported to final report ([#665](https://github.com/varfish-org/varfish-server/issues/665)) ([#1349](https://github.com/varfish-org/varfish-server/issues/1349)) ([b0bc5fc](https://github.com/varfish-org/varfish-server/commit/b0bc5fcd602de16c38bd1f4b1607c0f67b48af88))
+* change types of id column and sequence for large tables ([#462](https://github.com/varfish-org/varfish-server/issues/462)) ([#1350](https://github.com/varfish-org/varfish-server/issues/1350)) ([9d63c7c](https://github.com/varfish-org/varfish-server/commit/9d63c7cef9dfc699c8bb32e3ab6c87c34ed84e2e))
+* display ClinVar and GTEx values for each gene ([#672](https://github.com/varfish-org/varfish-server/issues/672), [#68](https://github.com/varfish-org/varfish-server/issues/68)) ([#1129](https://github.com/varfish-org/varfish-server/issues/1129)) ([6c83a00](https://github.com/varfish-org/varfish-server/commit/6c83a00c24ed606cc6a93d80811e37fc3727f58b))
+* enable SpliceAI and CADD-PHRED columns if available ([#1069](https://github.com/varfish-org/varfish-server/issues/1069)) ([#1073](https://github.com/varfish-org/varfish-server/issues/1073)) ([885bc13](https://github.com/varfish-org/varfish-server/commit/885bc136caef3c8c1f18e4022c9490b39371fbed))
+* flatten the "More..." tabs ([#1059](https://github.com/varfish-org/varfish-server/issues/1059)) ([#1060](https://github.com/varfish-org/varfish-server/issues/1060)) ([7a828c5](https://github.com/varfish-org/varfish-server/commit/7a828c582a2c1e7dc4aed67f7e2d3b79e5a71d3b))
+* implement expert load/save for genotype criteria ([#872](https://github.com/varfish-org/varfish-server/issues/872)) ([#875](https://github.com/varfish-org/varfish-server/issues/875)) ([87f24b4](https://github.com/varfish-org/varfish-server/commit/87f24b4f89c1d8003d0c15217bea9be20567fbcb))
+* improving gene list display for many genes ([#1092](https://github.com/varfish-org/varfish-server/issues/1092)) ([#1093](https://github.com/varfish-org/varfish-server/issues/1093)) ([d8785cb](https://github.com/varfish-org/varfish-server/commit/d8785cbd72c534f8c323e3f538e4d7c4cd172b65))
+* integrate ClinGen, sHet, rCNV gene information ([#1119](https://github.com/varfish-org/varfish-server/issues/1119)) ([1fbaf40](https://github.com/varfish-org/varfish-server/commit/1fbaf407171a95838d24dcd6d56ac6369a864bd3))
+* integrate seqvar details page from REEV ([#1300](https://github.com/varfish-org/varfish-server/issues/1300)) ([#1369](https://github.com/varfish-org/varfish-server/issues/1369)) ([a8f6da1](https://github.com/varfish-org/varfish-server/commit/a8f6da17a3862724a401d14a59c4d7eec70d43a9))
+* integrate SV filtration by sv_type/tx impact ([#986](https://github.com/varfish-org/varfish-server/issues/986)) ([#995](https://github.com/varfish-org/varfish-server/issues/995)) ([e9393b5](https://github.com/varfish-org/varfish-server/commit/e9393b528f37221f00d24faee66270767d9f31d4))
+* integrate variants/svs vuew apps into cases ([#843](https://github.com/varfish-org/varfish-server/issues/843)) ([#844](https://github.com/varfish-org/varfish-server/issues/844)) ([e0f671b](https://github.com/varfish-org/varfish-server/commit/e0f671bc8379c416a076f874c5b9686f0fcb3b8e))
+* integration of worker "seqvars ingest" ([#1189](https://github.com/varfish-org/varfish-server/issues/1189)) ([ead404a](https://github.com/varfish-org/varfish-server/commit/ead404a5f203e57f5c9410b1bf1b48ed200830b3))
+* integration of worker "strucvars ingest" ([#1190](https://github.com/varfish-org/varfish-server/issues/1190)) ([79cc5e7](https://github.com/varfish-org/varfish-server/commit/79cc5e71b02791c14b8079c810f470de753b6088))
+* interpret effective/compatible genotype info from worker ([#861](https://github.com/varfish-org/varfish-server/issues/861)) ([#865](https://github.com/varfish-org/varfish-server/issues/865)) ([2178238](https://github.com/varfish-org/varfish-server/commit/2178238593587f2c35b1552ba8630ced4910eb0e))
+* interpret SV breakpoint overlap with segmental duplications and repeats ([#859](https://github.com/varfish-org/varfish-server/issues/859)) ([#860](https://github.com/varfish-org/varfish-server/issues/860)) ([a8e233c](https://github.com/varfish-org/varfish-server/commit/a8e233c471a86d2a5572cc987fdc1979663f1b41))
+* logging number of query result rows ([#1066](https://github.com/varfish-org/varfish-server/issues/1066)) ([#1076](https://github.com/varfish-org/varfish-server/issues/1076)) ([d9c4e84](https://github.com/varfish-org/varfish-server/commit/d9c4e848dd511f7f18c7dc71dd654e2e726b548e))
+* prepare backend for case detail variant annotations ([#1099](https://github.com/varfish-org/varfish-server/issues/1099)) ([#1105](https://github.com/varfish-org/varfish-server/issues/1105)) ([28d18d2](https://github.com/varfish-org/varfish-server/commit/28d18d2e94d3cc39f54e3e385fc140fffc0333b8))
+* prepare small variant models for storing results ([#966](https://github.com/varfish-org/varfish-server/issues/966)) ([#985](https://github.com/varfish-org/varfish-server/issues/985)) ([939a046](https://github.com/varfish-org/varfish-server/commit/939a0468eae9d4034408cf4559a67e7c24ac876e))
+* provide genome browser through reverse proxy ([#1011](https://github.com/varfish-org/varfish-server/issues/1011)) ([#1015](https://github.com/varfish-org/varfish-server/issues/1015)) ([1e21de3](https://github.com/varfish-org/varfish-server/commit/1e21de32645e72ed0917b7f1dda4e3b490b8756d))
+* remove necessity nltk data download ([#1259](https://github.com/varfish-org/varfish-server/issues/1259)) ([#1269](https://github.com/varfish-org/varfish-server/issues/1269)) ([c10a37f](https://github.com/varfish-org/varfish-server/commit/c10a37fb1a089d9670eb9c4374b721e57ea6cb6e))
+* removing old filter ui implementation ([#864](https://github.com/varfish-org/varfish-server/issues/864)) ([#880](https://github.com/varfish-org/varfish-server/issues/880)) ([2dabbef](https://github.com/varfish-org/varfish-server/commit/2dabbef05e5af442dc53396fdc04d0318e93dca4))
+* searching for cases only works with exact match ([#1252](https://github.com/varfish-org/varfish-server/issues/1252)) ([#1270](https://github.com/varfish-org/varfish-server/issues/1270)) ([00edd75](https://github.com/varfish-org/varfish-server/commit/00edd75387564a79a8b58134265addad070ebec7))
+* update SV filtration filters ([#1094](https://github.com/varfish-org/varfish-server/issues/1094))) ([#1098](https://github.com/varfish-org/varfish-server/issues/1098)) ([e0e3da2](https://github.com/varfish-org/varfish-server/commit/e0e3da2f8b7061daafa2b41c3329a313712f8149))
+* upgrade to sodar core 0.13.0 ([#1113](https://github.com/varfish-org/varfish-server/issues/1113)) ([#1114](https://github.com/varfish-org/varfish-server/issues/1114)) ([0111247](https://github.com/varfish-org/varfish-server/commit/0111247fd20be347052ae00d963994d9509f7f9d))
+* use annonars REST API services for small variant details ([#1084](https://github.com/varfish-org/varfish-server/issues/1084)) ([#1087](https://github.com/varfish-org/varfish-server/issues/1087)) ([b7e8015](https://github.com/varfish-org/varfish-server/commit/b7e8015e1a9d71628c300b2ea37377452c365b60))
+* use CADD as default prioritization score ([#1063](https://github.com/varfish-org/varfish-server/issues/1063)) ([#1075](https://github.com/varfish-org/varfish-server/issues/1075)) ([23fc1a3](https://github.com/varfish-org/varfish-server/commit/23fc1a37a869fcb80434245b67807059365ff303))
+* vuejs switch from ag-grid to easy table ([#961](https://github.com/varfish-org/varfish-server/issues/961)) ([#965](https://github.com/varfish-org/varfish-server/issues/965)) ([284c9d2](https://github.com/varfish-org/varfish-server/commit/284c9d2d722c0c89d21c802dcd9008c99f060c56))
+
+
+### Bug Fixes
+
+* __vite_mapDeps not defined issue ([#1373](https://github.com/varfish-org/varfish-server/issues/1373)) ([4b226f8](https://github.com/varfish-org/varfish-server/commit/4b226f8ba102a5b43b7eba98b2c946c4faec579e))
+* adapting strucvar details to latest annonars changes ([#1229](https://github.com/varfish-org/varfish-server/issues/1229)) ([#1232](https://github.com/varfish-org/varfish-server/issues/1232)) ([b472a7c](https://github.com/varfish-org/varfish-server/commit/b472a7c5d134a586b05051294e009e66ab168d3a))
+* add missing dependencies to Dockerfile ([#996](https://github.com/varfish-org/varfish-server/issues/996)) ([0fe8219](https://github.com/varfish-org/varfish-server/commit/0fe8219c606c75e155a4fbc131805426c654dcc1))
+* add missing labels in variant frequency details ([#1064](https://github.com/varfish-org/varfish-server/issues/1064)) ([#1077](https://github.com/varfish-org/varfish-server/issues/1077)) ([1206181](https://github.com/varfish-org/varfish-server/commit/12061817db1aff5034572d8185655ad24fd95e8e))
+* add necessary tag for login page ([#1012](https://github.com/varfish-org/varfish-server/issues/1012)) ([9a40f67](https://github.com/varfish-org/varfish-server/commit/9a40f673fb6f015ba30da065ef1533bb0945268e))
+* adding back default columns ([#1127](https://github.com/varfish-org/varfish-server/issues/1127)) ([4fdc459](https://github.com/varfish-org/varfish-server/commit/4fdc459046aff7d52f0d69d0afc7c95f3d581d2a))
+* adding large panels causes incorrect linting errors ([#1184](https://github.com/varfish-org/varfish-server/issues/1184)) ([#1250](https://github.com/varfish-org/varfish-server/issues/1250)) ([feb0885](https://github.com/varfish-org/varfish-server/commit/feb08852e024ed65373aaa77c1f83ab60c29f0b2))
+* adjusting frontend code to changes in backend ([#1224](https://github.com/varfish-org/varfish-server/issues/1224), [#1225](https://github.com/varfish-org/varfish-server/issues/1225)) ([#1228](https://github.com/varfish-org/varfish-server/issues/1228)) ([0537ed0](https://github.com/varfish-org/varfish-server/commit/0537ed027066f292da801dc63153f663109399a8))
+* adjusting strucvar filter settings ([#984](https://github.com/varfish-org/varfish-server/issues/984)) ([94533b8](https://github.com/varfish-org/varfish-server/commit/94533b8e9176b155fc1d50e7a017ad550172776c))
+* allow changing the number of rows and switching pages in structural variants table ([#1268](https://github.com/varfish-org/varfish-server/issues/1268)) ([#1309](https://github.com/varfish-org/varfish-server/issues/1309)) ([5c964af](https://github.com/varfish-org/varfish-server/commit/5c964af0a4291a56d671aee20925b266175b9c79))
+* CADD score not shown in smallvar filter results vueapp ([#890](https://github.com/varfish-org/varfish-server/issues/890)) ([#920](https://github.com/varfish-org/varfish-server/issues/920)) ([2508639](https://github.com/varfish-org/varfish-server/commit/25086394304b4fba289554e5e09cdbd9771eeb2b))
+* case details annotations tables unexpectedly empty in some cases ([#1312](https://github.com/varfish-org/varfish-server/issues/1312)) ([#1313](https://github.com/varfish-org/varfish-server/issues/1313)) ([4d4fa10](https://github.com/varfish-org/varfish-server/commit/4d4fa105c14e14c21b180bd97dbf53b24be91c5b))
+* case not set on result set creation ([#1131](https://github.com/varfish-org/varfish-server/issues/1131)) ([2236a06](https://github.com/varfish-org/varfish-server/commit/2236a063881c5b6d6a448b25545b9fd9c46264c0))
+* cnv, genotype criteria and quick presets ([#858](https://github.com/varfish-org/varfish-server/issues/858)) ([c6d5e96](https://github.com/varfish-org/varfish-server/commit/c6d5e96fb24ac4a2d4bf739cd1acc675b4987896))
+* color of sv flags does not depend on summary status ([#1260](https://github.com/varfish-org/varfish-server/issues/1260)) ([#1325](https://github.com/varfish-org/varfish-server/issues/1325)) ([e5fb652](https://github.com/varfish-org/varfish-server/commit/e5fb65208894fe849e916614c1f8f4315c45fba3))
+* comments flags contains a perpetual spinning icon ([#893](https://github.com/varfish-org/varfish-server/issues/893)) ([#906](https://github.com/varfish-org/varfish-server/issues/906)) ([1ec0be4](https://github.com/varfish-org/varfish-server/commit/1ec0be4de9c0b5f779b07520660d8ddee5a54fd5))
+* compatible with mehari 0.8 ([#1174](https://github.com/varfish-org/varfish-server/issues/1174)) ([fe5a3dd](https://github.com/varfish-org/varfish-server/commit/fe5a3dde74c5e32ca15959e964b5ec2bd1b3b99f))
+* compound het and recessive mode broken ([#1058](https://github.com/varfish-org/varfish-server/issues/1058)) ([#1078](https://github.com/varfish-org/varfish-server/issues/1078)) ([4b4da69](https://github.com/varfish-org/varfish-server/commit/4b4da69a13b5b6d49b30695a17b6cea361974040))
+* confusing genomic region genelist in filter vue app ([#878](https://github.com/varfish-org/varfish-server/issues/878), [#879](https://github.com/varfish-org/varfish-server/issues/879)) ([#882](https://github.com/varfish-org/varfish-server/issues/882)) ([fc5e7cb](https://github.com/varfish-org/varfish-server/commit/fc5e7cbca711607d7d7497f9f9f56e9bd750cd33))
+* dbsnp int to bigint ([#1370](https://github.com/varfish-org/varfish-server/issues/1370)) ([baa17b0](https://github.com/varfish-org/varfish-server/commit/baa17b07e05caa59854aa41ac98a20d7ff9f5312))
+* deleting a case broken ([#1162](https://github.com/varfish-org/varfish-server/issues/1162)) ([#1301](https://github.com/varfish-org/varfish-server/issues/1301)) ([0c2cf19](https://github.com/varfish-org/varfish-server/commit/0c2cf1996197dd678587841ff63266b020b57f17))
+* display of clinical significance in per-gene table ([18c4a55](https://github.com/varfish-org/varfish-server/commit/18c4a552049cb78f7481727ea9b5641b07a98b48))
+* distance to next exon setting is not properly interpreted ([#1029](https://github.com/varfish-org/varfish-server/issues/1029)) ([#1041](https://github.com/varfish-org/varfish-server/issues/1041)) ([1e5aaff](https://github.com/varfish-org/varfish-server/commit/1e5aaff54a4b106bb464819c920aec67dbb81407))
+* distance to next exon should be reset when selecting a new quick preset ([#1256](https://github.com/varfish-org/varfish-server/issues/1256)) ([#1324](https://github.com/varfish-org/varfish-server/issues/1324)) ([432d6ce](https://github.com/varfish-org/varfish-server/commit/432d6ce460c8c659591fc0d4349d475dc2e817d9))
+* error in parsing chromosomal coordinates in genomic regions ([#989](https://github.com/varfish-org/varfish-server/issues/989)) ([#990](https://github.com/varfish-org/varfish-server/issues/990)) ([37533d0](https://github.com/varfish-org/varfish-server/commit/37533d05b091eeb311d9f38c4652a525ac708b4e))
+* exomiser parameters are wrong ([#947](https://github.com/varfish-org/varfish-server/issues/947)) ([#1346](https://github.com/varfish-org/varfish-server/issues/1346)) ([0c3fb1c](https://github.com/varfish-org/varfish-server/commit/0c3fb1c94bdfcf8cbe04b21948c666f290b9950b))
+* exomiser prioritization broken for some genes ([#1085](https://github.com/varfish-org/varfish-server/issues/1085)) ([#1086](https://github.com/varfish-org/varfish-server/issues/1086)) ([52063d1](https://github.com/varfish-org/varfish-server/commit/52063d16ce9ab361989d459f065cade1c9ffc5ab))
+* fielderror cannot resolve keyword genotype into field ([#988](https://github.com/varfish-org/varfish-server/issues/988)) ([#991](https://github.com/varfish-org/varfish-server/issues/991)) ([1e5a12b](https://github.com/varfish-org/varfish-server/commit/1e5a12b61b1308042bf40869965a09ad51dcb80f))
+* fix SV flagging issue with BND/INS types ([#1088](https://github.com/varfish-org/varfish-server/issues/1088)) ([6a27732](https://github.com/varfish-org/varfish-server/commit/6a27732d464b41ea53f37f2d1697ec51dba17c29))
+* further speed improvement loading small variant table ([#1037](https://github.com/varfish-org/varfish-server/issues/1037)) ([#1038](https://github.com/varfish-org/varfish-server/issues/1038)) ([5fe0c36](https://github.com/varfish-org/varfish-server/commit/5fe0c36a90449d57019a379525be1698152cb9f1))
+* genomic regions are not stored correctly ([#992](https://github.com/varfish-org/varfish-server/issues/992)) ([#994](https://github.com/varfish-org/varfish-server/issues/994)) ([b6a4955](https://github.com/varfish-org/varfish-server/commit/b6a4955793415d78d5ccc7a4f2790b8d05bb357b))
+* genomic regions are not stored correctly ([#992](https://github.com/varfish-org/varfish-server/issues/992)) ([#999](https://github.com/varfish-org/varfish-server/issues/999)) ([58a46ea](https://github.com/varfish-org/varfish-server/commit/58a46ea82544e63cabe7131bb8a15dfea92ee86c))
+* genotype criteria quick preset can now be applied ([#856](https://github.com/varfish-org/varfish-server/issues/856)) ([625cf68](https://github.com/varfish-org/varfish-server/commit/625cf68e57a08e00f64a79bb6b1dfb8fa1a1447b))
+* high quality as default for sv filtration ([#984](https://github.com/varfish-org/varfish-server/issues/984)) ([#1027](https://github.com/varfish-org/varfish-server/issues/1027)) ([620eb8a](https://github.com/varfish-org/varfish-server/commit/620eb8a66a0ddf7793e81d69755dc4ebdeae9548))
+* igv button creates new empty tab ([#889](https://github.com/varfish-org/varfish-server/issues/889)) ([#894](https://github.com/varfish-org/varfish-server/issues/894)) ([98bf9ad](https://github.com/varfish-org/varfish-server/commit/98bf9addd9783c8fe2f312b95d19d936fd84ed63))
+* igv button in smallvariant results filter vue app ([#877](https://github.com/varfish-org/varfish-server/issues/877)) ([#881](https://github.com/varfish-org/varfish-server/issues/881)) ([7737f24](https://github.com/varfish-org/varfish-server/commit/7737f24dc8579fd11b403f0a392a713003cf4b7c))
+* igv shows error for grch38 svs ([#1274](https://github.com/varfish-org/varfish-server/issues/1274)) ([#1323](https://github.com/varfish-org/varfish-server/issues/1323)) ([ac56b4e](https://github.com/varfish-org/varfish-server/commit/ac56b4e0ac90ce33ac0e8aa3fa3b1e2737a0b06b))
+* issue with generating strucvar query JSON and empty values ([#974](https://github.com/varfish-org/varfish-server/issues/974)) ([f20877c](https://github.com/varfish-org/varfish-server/commit/f20877c9c685285ec5778253773dcaa5fafc6aa6))
+* lift over orphaned variant annotations ([#1124](https://github.com/varfish-org/varfish-server/issues/1124)) ([#1126](https://github.com/varfish-org/varfish-server/issues/1126)) ([764440a](https://github.com/varfish-org/varfish-server/commit/764440a7b6b55d34b4b404c2042f52d29e8dc5de))
+* make comments and flags work in SV filtration ([#867](https://github.com/varfish-org/varfish-server/issues/867)) ([#869](https://github.com/varfish-org/varfish-server/issues/869)) ([7b1de6c](https://github.com/varfish-org/varfish-server/commit/7b1de6cbcc34e2e05b83bf35ed1d537f7cef444a))
+* make flagging SVs possible again ([#1006](https://github.com/varfish-org/varfish-server/issues/1006)) ([#1007](https://github.com/varfish-org/varfish-server/issues/1007)) ([cf9c1bb](https://github.com/varfish-org/varfish-server/commit/cf9c1bb779d9674e8f88545c2389b3fe10458f3b))
+* make SV import work when feature-effects are empty ([#1040](https://github.com/varfish-org/varfish-server/issues/1040)) ([3da4367](https://github.com/varfish-org/varfish-server/commit/3da4367f1b98e44148f4c5ead8ea43835dabf385))
+* making gnomAD frequency display work again ([#1108](https://github.com/varfish-org/varfish-server/issues/1108)) ([f92fb41](https://github.com/varfish-org/varfish-server/commit/f92fb4145eea59a13e841fa11d0c221d746a4ba0))
+* making IGV button in Vue.js SV filtration work ([#870](https://github.com/varfish-org/varfish-server/issues/870)) ([4f94a24](https://github.com/varfish-org/varfish-server/commit/4f94a2448609da490ce6bfd7a8fd735cbf24a0b6))
+* mehari call ([#1199](https://github.com/varfish-org/varfish-server/issues/1199)) ([a43ebf4](https://github.com/varfish-org/varfish-server/commit/a43ebf4a67bf65815d0f63f5bb14b239dbd900ea))
+* mehari call ([#1202](https://github.com/varfish-org/varfish-server/issues/1202)) ([2a9e3ba](https://github.com/varfish-org/varfish-server/commit/2a9e3ba6723800554f372db12ce8da1819880960))
+* misleading no available data message on empty result sets ([#1275](https://github.com/varfish-org/varfish-server/issues/1275)) ([#1310](https://github.com/varfish-org/varfish-server/issues/1310)) ([2b16503](https://github.com/varfish-org/varfish-server/commit/2b1650316bf7f9a818ab3c5e736839dc33b11546))
+* optional columns selected with each variant detail view ([#1111](https://github.com/varfish-org/varfish-server/issues/1111)) ([#1112](https://github.com/varfish-org/varfish-server/issues/1112)) ([3a49d08](https://github.com/varfish-org/varfish-server/commit/3a49d087127086c3810703430a6094f907a982ed))
+* order link-outs alphabetically ([#1097](https://github.com/varfish-org/varfish-server/issues/1097)) ([e3a7043](https://github.com/varfish-org/varfish-server/commit/e3a704303a51f56c30b662c6c94986ceb2144fc1))
+* permissions broken for smallvariant query ([#1013](https://github.com/varfish-org/varfish-server/issues/1013)) ([#1014](https://github.com/varfish-org/varfish-server/issues/1014)) ([5bf6b4d](https://github.com/varfish-org/varfish-server/commit/5bf6b4d0db196a1043b431836ca6d8b2f131c960))
+* phenotype score not shown in vue filter results ([#892](https://github.com/varfish-org/varfish-server/issues/892)) ([#921](https://github.com/varfish-org/varfish-server/issues/921)) ([943a6e5](https://github.com/varfish-org/varfish-server/commit/943a6e53b3dbd5f04f66ea72b3337ee6d0e6a42f))
+* phenotype scoring in vue filter app broken ([#924](https://github.com/varfish-org/varfish-server/issues/924)) ([#925](https://github.com/varfish-org/varfish-server/issues/925)) ([3b82979](https://github.com/varfish-org/varfish-server/commit/3b829798902ade369509141543c5a3d0d8d0bc81))
+* previous query is not restricted to user ([#1030](https://github.com/varfish-org/varfish-server/issues/1030)) ([#1080](https://github.com/varfish-org/varfish-server/issues/1080)) ([58ff28f](https://github.com/varfish-org/varfish-server/commit/58ff28f4675a8632697ca16f4b5a91f839116707))
+* prioritizer and phenotype scoring not used in query ([#1016](https://github.com/varfish-org/varfish-server/issues/1016)) ([#1017](https://github.com/varfish-org/varfish-server/issues/1017)) ([69fd67a](https://github.com/varfish-org/varfish-server/commit/69fd67ac021f118e27d3b22e56d1daeb93f79b9e))
+* prioriziation with hpo terms not accepting omim terms ([#902](https://github.com/varfish-org/varfish-server/issues/902)) ([#903](https://github.com/varfish-org/varfish-server/issues/903)) ([1ad920b](https://github.com/varfish-org/varfish-server/commit/1ad920b102a03b7aaaa887ada89e7f48a8ca178d))
+* prioriziation with hpo terms not accepting omim terms pt2 ([#907](https://github.com/varfish-org/varfish-server/issues/907)) ([#908](https://github.com/varfish-org/varfish-server/issues/908)) ([aa18371](https://github.com/varfish-org/varfish-server/commit/aa183710ea65a813731ac9be937eaa43184f9a26))
+* properly handle all-null/"." REVEL etc. scores ([#1117](https://github.com/varfish-org/varfish-server/issues/1117)) ([#1130](https://github.com/varfish-org/varfish-server/issues/1130)) ([10afced](https://github.com/varfish-org/varfish-server/commit/10afced282396a025be6205530502c3775a855dd))
+* properly link out in SV results table ([#1068](https://github.com/varfish-org/varfish-server/issues/1068)) ([#1072](https://github.com/varfish-org/varfish-server/issues/1072)) ([5ecd0cc](https://github.com/varfish-org/varfish-server/commit/5ecd0cc0946ec18493534031ef90ca5e40e482a7))
+* properly load user annotations into stores ([#1197](https://github.com/varfish-org/varfish-server/issues/1197)) ([6bc4172](https://github.com/varfish-org/varfish-server/commit/6bc417213c3c2e1773d0ce20571ebaf285384325))
+* properly reset factoryboy sequences when used with snapshot tests ([#1186](https://github.com/varfish-org/varfish-server/issues/1186)) ([0f641a2](https://github.com/varfish-org/varfish-server/commit/0f641a2dcf98e0924ecc6652c8a9d58b18fc9792))
+* QC missing alignment quality in case detail vue app ([#922](https://github.com/varfish-org/varfish-server/issues/922)) ([#929](https://github.com/varfish-org/varfish-server/issues/929)) ([8b6916a](https://github.com/varfish-org/varfish-server/commit/8b6916acafbd180d244d8cb29c46ee83b6b2e9de))
+* query result sets not created on case import ([#1241](https://github.com/varfish-org/varfish-server/issues/1241)) ([#1242](https://github.com/varfish-org/varfish-server/issues/1242)) ([b5659a9](https://github.com/varfish-org/varfish-server/commit/b5659a95e0ee1df88ec243f72e545400439e125e))
+* quick preset dropdown is empty in vue app ([#891](https://github.com/varfish-org/varfish-server/issues/891)) ([#896](https://github.com/varfish-org/varfish-server/issues/896)) ([970edd7](https://github.com/varfish-org/varfish-server/commit/970edd7be13dc99d608334d6d28efa84923aead7))
+* quick preset dropdown is empty in vue app ([#900](https://github.com/varfish-org/varfish-server/issues/900)) ([#901](https://github.com/varfish-org/varfish-server/issues/901)) ([bce57c6](https://github.com/varfish-org/varfish-server/commit/bce57c6fdbaa0180927ab689da9f3badb080c2da))
+* quick presets in vue filter app ([#849](https://github.com/varfish-org/varfish-server/issues/849)) ([#862](https://github.com/varfish-org/varfish-server/issues/862)) ([1e956c9](https://github.com/varfish-org/varfish-server/commit/1e956c92aabfc7fee9caaefaec60f0034f5e2cc9))
+* re-enable searching for cases and list in project overview ([#1004](https://github.com/varfish-org/varfish-server/issues/1004)) ([#1008](https://github.com/varfish-org/varfish-server/issues/1008)) ([8679d52](https://github.com/varfish-org/varfish-server/commit/8679d52d1b06de7f1c3effef44ccc28732093d77))
+* Remove IGV prefixing ([#1284](https://github.com/varfish-org/varfish-server/issues/1284)) ([3a917fe](https://github.com/varfish-org/varfish-server/commit/3a917feb35809c7772e1d810e02fcc067046b7eb))
+* removing dedup/repeat filter for SVs again ([#897](https://github.com/varfish-org/varfish-server/issues/897)) ([#915](https://github.com/varfish-org/varfish-server/issues/915)) ([7ea4f6c](https://github.com/varfish-org/varfish-server/commit/7ea4f6c0b994bd2ad212abc5ea6a2efdc8123c8d))
+* resolve issue in project QC with variant statistics API ([#1009](https://github.com/varfish-org/varfish-server/issues/1009)) ([a1188a8](https://github.com/varfish-org/varfish-server/commit/a1188a8fcd4a30e58b0385413ace01403c5013ce))
+* resolve issue with sv quick preset initialization ([#1003](https://github.com/varfish-org/varfish-server/issues/1003)) ([864029a](https://github.com/varfish-org/varfish-server/commit/864029a0cb4964784326186d96ef81042ca9ee03))
+* resolve pylance issue with subscription of dict ([#1187](https://github.com/varfish-org/varfish-server/issues/1187)) ([3a7fbe0](https://github.com/varfish-org/varfish-server/commit/3a7fbe0a37909f24f7ccac81aee02db8c76f9719))
+* resolving issues after large-scale update ([#1107](https://github.com/varfish-org/varfish-server/issues/1107)) ([4fe2a54](https://github.com/varfish-org/varfish-server/commit/4fe2a5495291693e21ff0807143d267a3e8eafae))
+* result download broken in vue app for scores ([#926](https://github.com/varfish-org/varfish-server/issues/926)) ([#927](https://github.com/varfish-org/varfish-server/issues/927)) ([5a46eeb](https://github.com/varfish-org/varfish-server/commit/5a46eeb9f0244ce2576a50c69acbf85aea5cfce6))
+* resultset store issue ([#1209](https://github.com/varfish-org/varfish-server/issues/1209)) ([e56eac7](https://github.com/varfish-org/varfish-server/commit/e56eac7d347454aaad3e7a685b3035ff7447212f))
+* rollback mehari call ([#1204](https://github.com/varfish-org/varfish-server/issues/1204)) ([1ce636b](https://github.com/varfish-org/varfish-server/commit/1ce636b4f776ac7d6a51e1050a1a0a1515e5d622))
+* small variant and svs load all available flags and comments ([#1032](https://github.com/varfish-org/varfish-server/issues/1032)) ([#1036](https://github.com/varfish-org/varfish-server/issues/1036)) ([6bc445b](https://github.com/varfish-org/varfish-server/commit/6bc445b4e6a3d1b42f46b4afe7ea554b45296756))
+* sorting broken in smallvariant results table ([#1018](https://github.com/varfish-org/varfish-server/issues/1018)) ([#1026](https://github.com/varfish-org/varfish-server/issues/1026)) ([ddae17a](https://github.com/varfish-org/varfish-server/commit/ddae17a5206c304f0fd5afad728a3e74821588d8))
+* structural variant worker call ([#1203](https://github.com/varfish-org/varfish-server/issues/1203)) ([d752480](https://github.com/varfish-org/varfish-server/commit/d75248035153150656ec7c89b992d82316e010ec))
+* strucvar filtration always run with grch37 ([#1271](https://github.com/varfish-org/varfish-server/issues/1271)) ([#1272](https://github.com/varfish-org/varfish-server/issues/1272)) ([c0a8fbc](https://github.com/varfish-org/varfish-server/commit/c0a8fbc665cac9078abfc3a921b6eda638f5a807))
+* suppress BAM QC table if BAM stats missing ([#1213](https://github.com/varfish-org/varfish-server/issues/1213)) ([6f0cfa0](https://github.com/varfish-org/varfish-server/commit/6f0cfa0e436ac0d72530fa9e214f3cf85f4b54ce))
+* sv queries submit to wrong celery worker queue ([#1052](https://github.com/varfish-org/varfish-server/issues/1052)) ([#1053](https://github.com/varfish-org/varfish-server/issues/1053)) ([e12b02d](https://github.com/varfish-org/varfish-server/commit/e12b02df82e8e2c564de0a5a2e6b17d65eceab77))
+* sv results page shows previous results after sv details ([#1302](https://github.com/varfish-org/varfish-server/issues/1302)) ([#1303](https://github.com/varfish-org/varfish-server/issues/1303)) ([028e6e5](https://github.com/varfish-org/varfish-server/commit/028e6e53a4adeefae95f503583aa0ff2553352a2))
+* switch case import data port setting to type integer ([#1214](https://github.com/varfish-org/varfish-server/issues/1214)) ([ac9bb76](https://github.com/varfish-org/varfish-server/commit/ac9bb7663e7401b25688274a46bdab16a123d481))
+* table in default sorting after returning from details ([#1109](https://github.com/varfish-org/varfish-server/issues/1109)) ([#1110](https://github.com/varfish-org/varfish-server/issues/1110)) ([7b346d4](https://github.com/varfish-org/varfish-server/commit/7b346d450cd62487fcdd388bbd81943b3348cd20))
+* table sorting on variants result page ([#1128](https://github.com/varfish-org/varfish-server/issues/1128)) ([1f3e4a2](https://github.com/varfish-org/varfish-server/commit/1f3e4a25d424674b9932913aa37a4d408622eb45))
+* table sorting settings not preserved ([#1212](https://github.com/varfish-org/varfish-server/issues/1212)) ([0157ea1](https://github.com/varfish-org/varfish-server/commit/0157ea118b361734d54e35d49ef417de2d45d07b))
+* timing issue when initializing pinia ([#1374](https://github.com/varfish-org/varfish-server/issues/1374)) ([64c99e6](https://github.com/varfish-org/varfish-server/commit/64c99e65f17770ec0f0427dfe406867af2a983e4))
+* updated pipfile lock ([#1210](https://github.com/varfish-org/varfish-server/issues/1210)) ([6ab8ff5](https://github.com/varfish-org/varfish-server/commit/6ab8ff5a358e32510c6a02365ac5dcc7dcfb10cb))
+* updating Pipfile.lock ([#1054](https://github.com/varfish-org/varfish-server/issues/1054)) ([#1055](https://github.com/varfish-org/varfish-server/issues/1055)) ([fe64118](https://github.com/varfish-org/varfish-server/commit/fe6411893bbd4e063d93388ffbea03550fed15da))
+* value in exon max dist prevents submitting query ([#993](https://github.com/varfish-org/varfish-server/issues/993)) ([#1005](https://github.com/varfish-org/varfish-server/issues/1005)) ([682a4c6](https://github.com/varfish-org/varfish-server/commit/682a4c61b7d1440018bb08344c85b4e29dfa096e))
+* vue app queries using virtual panels can't be submitted ([#940](https://github.com/varfish-org/varfish-server/issues/940)) ([#944](https://github.com/varfish-org/varfish-server/issues/944)) ([c36bb30](https://github.com/varfish-org/varfish-server/commit/c36bb30120d90cae0d36ae5c67b5b6b1d2dcaeef))
+* vue linkout pubmed+pheno currently disabled ([#941](https://github.com/varfish-org/varfish-server/issues/941)) ([#945](https://github.com/varfish-org/varfish-server/issues/945)) ([6d0b2e1](https://github.com/varfish-org/varfish-server/commit/6d0b2e17a6e7df4f47574980d705ade5f0f3af02))
+* vue small variant details genotype info is empty ([#932](https://github.com/varfish-org/varfish-server/issues/932)) ([#946](https://github.com/varfish-org/varfish-server/issues/946)) ([041a036](https://github.com/varfish-org/varfish-server/commit/041a036ff7c24a1b3184d614a0b812810c0fcbc9))
+* vue small variants extra annotations are missing ([#931](https://github.com/varfish-org/varfish-server/issues/931)) ([#943](https://github.com/varfish-org/varfish-server/issues/943)) ([b4f98bb](https://github.com/varfish-org/varfish-server/commit/b4f98bbe98a1f350a76ce67e93dcc9cfa520c384))
+* vuejs case disease terms not editable ([#948](https://github.com/varfish-org/varfish-server/issues/948)) ([#949](https://github.com/varfish-org/varfish-server/issues/949)) ([c6be021](https://github.com/varfish-org/varfish-server/commit/c6be021b5322917c4a7b6064473c42f56d613489))
+* vuejs make filter button text more descriptive ([#939](https://github.com/varfish-org/varfish-server/issues/939)) ([#958](https://github.com/varfish-org/varfish-server/issues/958)) ([e380a19](https://github.com/varfish-org/varfish-server/commit/e380a194aa8f69f97e6590021f210d4835920407))
+* vuejs varsome linkout for variants missing ([#951](https://github.com/varfish-org/varfish-server/issues/951)) ([#956](https://github.com/varfish-org/varfish-server/issues/956)) ([1119c56](https://github.com/varfish-org/varfish-server/commit/1119c56bed968be9b6cd401c1fbf202c316a9468))
+* whole transcript preset should include non coding transcripts ([#1044](https://github.com/varfish-org/varfish-server/issues/1044)) ([#1071](https://github.com/varfish-org/varfish-server/issues/1071)) ([36e8055](https://github.com/varfish-org/varfish-server/commit/36e80553873bf80ec87d2590290b4fed47bf3594))
+
+
+### Reverts
+
+* quick preset dropdown is empty in vue app ([#891](https://github.com/varfish-org/varfish-server/issues/891)) ([#896](https://github.com/varfish-org/varfish-server/issues/896)) ([6bb0302](https://github.com/varfish-org/varfish-server/commit/6bb0302543504ae50fcfa5a31f511786a4845a07))
+
+
+### Documentation
+
+* fix admin_ingest.rst ([#917](https://github.com/varfish-org/varfish-server/issues/917)) ([3be1971](https://github.com/varfish-org/varfish-server/commit/3be1971873ac570e77a0538690bc2d7a13947541))
+* fixing readthedocs documentation ([#1317](https://github.com/varfish-org/varfish-server/issues/1317)) ([575a946](https://github.com/varfish-org/varfish-server/commit/575a946d1ae17da12552b873240304b2fde2b3f1))
+* small fixes to admin ingest ([#918](https://github.com/varfish-org/varfish-server/issues/918)) ([f3f13bb](https://github.com/varfish-org/varfish-server/commit/f3f13bb2b5651f42bbcc528a6f7331ecf92ae1a4))
+
 ## v1.1.4
 
 ### Full Change List