Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

chore: release 1.0.0 #27

Open
wants to merge 1 commit into
base: main
Choose a base branch
from
Open

chore: release 1.0.0 #27

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
51 changes: 51 additions & 0 deletions CHANGELOG.md
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1 +1,52 @@
# Changelog

## [1.0.0](https://www.github.com/bihealth/varfish-db-downloader/compare/v0.3.0...v1.0.0) (2024-01-19)


### ⚠ BREAKING CHANGES

* refactoring for bollonaster (#22)

### Features

* add DECIPHER HI predictions v3 ([#63](https://www.github.com/bihealth/varfish-db-downloader/issues/63)) ([375dd36](https://www.github.com/bihealth/varfish-db-downloader/commit/375dd362d53a61a8b0db13ef492f71766ab06638))
* add missing background data for GRCh38 ([#5](https://www.github.com/bihealth/varfish-db-downloader/issues/5)) ([#37](https://www.github.com/bihealth/varfish-db-downloader/issues/37)) ([9ce1cab](https://www.github.com/bihealth/varfish-db-downloader/commit/9ce1cab9e94b34f349bc1752c4cd7b3d1d712cfb))
* add nightly test for upstream URL availability ([#6](https://www.github.com/bihealth/varfish-db-downloader/issues/6)) ([#32](https://www.github.com/bihealth/varfish-db-downloader/issues/32)) ([e30b093](https://www.github.com/bihealth/varfish-db-downloader/commit/e30b093e9b2ac87960269028e1e57009247b2dab))
* add reduced development dataset ([#44](https://www.github.com/bihealth/varfish-db-downloader/issues/44)) ([#47](https://www.github.com/bihealth/varfish-db-downloader/issues/47)) ([dd8170e](https://www.github.com/bihealth/varfish-db-downloader/commit/dd8170e55df207e2258aef3e4796782d3c868020))
* adding AlphaMissense scores ([#60](https://www.github.com/bihealth/varfish-db-downloader/issues/60)) ([53e4209](https://www.github.com/bihealth/varfish-db-downloader/commit/53e4209e79f967c5131f05b3914f37c30f086819))
* adding annonars functional ([#68](https://www.github.com/bihealth/varfish-db-downloader/issues/68)) ([f00db04](https://www.github.com/bihealth/varfish-db-downloader/commit/f00db04286b6406346434be2fee4485740f84a22))
* adding clingen curation data ([#55](https://www.github.com/bihealth/varfish-db-downloader/issues/55)) ([51435df](https://www.github.com/bihealth/varfish-db-downloader/commit/51435dfd86bc4f02ae4ae71cb97ae3a29d54e695))
* adding DECIPHER HI to annonars genes ([#69](https://www.github.com/bihealth/varfish-db-downloader/issues/69)) ([307cf58](https://www.github.com/bihealth/varfish-db-downloader/commit/307cf5838d56d864f733cce27400269f4866848b))
* adding files for varfish-server-worker ([#50](https://www.github.com/bihealth/varfish-db-downloader/issues/50)) ([#51](https://www.github.com/bihealth/varfish-db-downloader/issues/51)) ([ba84443](https://www.github.com/bihealth/varfish-db-downloader/commit/ba84443ff611f21341414b4b87a55d55f7f95a45))
* adding pHaplo, pTriplo, sHet as seen in DECIPHER ([#56](https://www.github.com/bihealth/varfish-db-downloader/issues/56)) ([b0d6884](https://www.github.com/bihealth/varfish-db-downloader/commit/b0d6884c949899f154dd7029a9e59cabcaed68c4))
* adding test mode ([#7](https://www.github.com/bihealth/varfish-db-downloader/issues/7)) ([#30](https://www.github.com/bihealth/varfish-db-downloader/issues/30)) ([a415bfe](https://www.github.com/bihealth/varfish-db-downloader/commit/a415bfe64f8e8a21f76e9a2dc34180645244dbcf))
* adjusting output paths ([#42](https://www.github.com/bihealth/varfish-db-downloader/issues/42)) ([4b01fe9](https://www.github.com/bihealth/varfish-db-downloader/commit/4b01fe9340bfac15883fa217702997a4e10499e8))
* annotating with Orphanet diseases ([#58](https://www.github.com/bihealth/varfish-db-downloader/issues/58)) ([7d43865](https://www.github.com/bihealth/varfish-db-downloader/commit/7d43865a48cf68342a1f1f23ab33ffeee5a22a78))
* annotation of genes with OMIM diseases ([#57](https://www.github.com/bihealth/varfish-db-downloader/issues/57)) ([6c19f59](https://www.github.com/bihealth/varfish-db-downloader/commit/6c19f5927870868b43d651b8eb6356e527a494f5))
* binary conversion of sequence dbs with annonars and worker ([#35](https://www.github.com/bihealth/varfish-db-downloader/issues/35)) ([#40](https://www.github.com/bihealth/varfish-db-downloader/issues/40)) ([8d1542f](https://www.github.com/bihealth/varfish-db-downloader/commit/8d1542f0e4ff312f4e03828326ac7237f5c96f50))
* build annonars regions (clingen dosage) ([#67](https://www.github.com/bihealth/varfish-db-downloader/issues/67)) ([664295d](https://www.github.com/bihealth/varfish-db-downloader/commit/664295d8db03130bb0a3b52520f17b166874e40b))
* build output files for background data containers ([#35](https://www.github.com/bihealth/varfish-db-downloader/issues/35)) ([#41](https://www.github.com/bihealth/varfish-db-downloader/issues/41)) ([f3d936c](https://www.github.com/bihealth/varfish-db-downloader/commit/f3d936c2e970fed49b57b34d161174b2fc4b1684))
* bump dbvar to 20231030 ([#81](https://www.github.com/bihealth/varfish-db-downloader/issues/81)) ([4fe6866](https://www.github.com/bihealth/varfish-db-downloader/commit/4fe68668c27ef8b0796a5ddf18f0aa6b368b4ae8))
* cleanup and restructuring of output and code ([#34](https://www.github.com/bihealth/varfish-db-downloader/issues/34)) ([#36](https://www.github.com/bihealth/varfish-db-downloader/issues/36)) ([400119f](https://www.github.com/bihealth/varfish-db-downloader/commit/400119fc90dc48662a50ccf427f23e1e2e9f8d54))
* download of ClinGen dosage sensitivity ([#61](https://www.github.com/bihealth/varfish-db-downloader/issues/61)) ([17fa976](https://www.github.com/bihealth/varfish-db-downloader/commit/17fa976c4075b412cea40e1bb537fba0e56c8ce6))
* download of ClinGen dosage sensitivity ([#62](https://www.github.com/bihealth/varfish-db-downloader/issues/62)) ([b6bc6c5](https://www.github.com/bihealth/varfish-db-downloader/commit/b6bc6c56824dcbdda306f3cebeca39b4a74c263d))
* import of gnomAD SV data into RocksDB ([#66](https://www.github.com/bihealth/varfish-db-downloader/issues/66)) ([3fd72dd](https://www.github.com/bihealth/varfish-db-downloader/commit/3fd72ddd835d38159af18df36c4119105b061587))
* importing GTex data into annonars genes database ([#59](https://www.github.com/bihealth/varfish-db-downloader/issues/59)) ([a2e63f0](https://www.github.com/bihealth/varfish-db-downloader/commit/a2e63f0981268043c452abc0da1928be0e4f2128))
* integrating gnomAD v4 ([#75](https://www.github.com/bihealth/varfish-db-downloader/issues/75)) ([d529d7e](https://www.github.com/bihealth/varfish-db-downloader/commit/d529d7e33fc85c352924a06eb8e5d075099ee339))
* integrating PanelApp download for annonars ([#79](https://www.github.com/bihealth/varfish-db-downloader/issues/79)) ([#80](https://www.github.com/bihealth/varfish-db-downloader/issues/80)) ([3a332a0](https://www.github.com/bihealth/varfish-db-downloader/commit/3a332a078ffa9f3e9cb4de927e98ffa12496a5a4))
* introduce comprehensive spec YAML files ([#33](https://www.github.com/bihealth/varfish-db-downloader/issues/33)) ([#43](https://www.github.com/bihealth/varfish-db-downloader/issues/43)) ([3f70b57](https://www.github.com/bihealth/varfish-db-downloader/commit/3f70b5775cdbce77a28e187ead6ccec3dfadafa6))
* make runnable with Slurm ([#38](https://www.github.com/bihealth/varfish-db-downloader/issues/38)) ([#39](https://www.github.com/bihealth/varfish-db-downloader/issues/39)) ([2f6deac](https://www.github.com/bihealth/varfish-db-downloader/commit/2f6deacbe222873eeb7758ca08b662671552a948))
* provide enrichment probesets for Agilent/IDT/Twist ([#52](https://www.github.com/bihealth/varfish-db-downloader/issues/52)) ([#53](https://www.github.com/bihealth/varfish-db-downloader/issues/53)) ([c156f7f](https://www.github.com/bihealth/varfish-db-downloader/commit/c156f7f1d567a37e9eaf691e2b0a511e1f3b4d2b))
* refactoring for bollonaster ([#22](https://www.github.com/bihealth/varfish-db-downloader/issues/22)) ([1b35484](https://www.github.com/bihealth/varfish-db-downloader/commit/1b354843482bd4db72c45bb87d5d9143d25b3b87))
* replace orphapacket by orphadata API access ([#84](https://www.github.com/bihealth/varfish-db-downloader/issues/84)) ([#85](https://www.github.com/bihealth/varfish-db-downloader/issues/85)) ([482bdd0](https://www.github.com/bihealth/varfish-db-downloader/commit/482bdd0f4982172d1548d571a6b9f60e4da0ef29))
* retrieve downloader version via cli ([#83](https://www.github.com/bihealth/varfish-db-downloader/issues/83)) ([06c800c](https://www.github.com/bihealth/varfish-db-downloader/commit/06c800c8336a60723e2aad9f8b4e93fdecb38d7e))
* updating annonars genes with ClinGen dosage & DOMINO ([#65](https://www.github.com/bihealth/varfish-db-downloader/issues/65)) ([0797f2d](https://www.github.com/bihealth/varfish-db-downloader/commit/0797f2dcfd3e0d639c6c0648b65ac326df8c81d7))
* upgrade dbNSFP to v4.5 ([#77](https://www.github.com/bihealth/varfish-db-downloader/issues/77)) ([#78](https://www.github.com/bihealth/varfish-db-downloader/issues/78)) ([62d2f9a](https://www.github.com/bihealth/varfish-db-downloader/commit/62d2f9a2e2fe7a221c7cf1648bd88c01cbe656bc))
* version bump of mehari and transcripts ([#64](https://www.github.com/bihealth/varfish-db-downloader/issues/64)) ([bbcf2f2](https://www.github.com/bihealth/varfish-db-downloader/commit/bbcf2f2f685fa81e86091282185fac29aa1cd3f4))


### Bug Fixes

* adjusting to GTEx upstream URL change ([#71](https://www.github.com/bihealth/varfish-db-downloader/issues/71)) ([b3ec6d8](https://www.github.com/bihealth/varfish-db-downloader/commit/b3ec6d8da5a5eda339894644ae7efee6b95daede))
* removing duplicates in conditions JSONL ([#86](https://www.github.com/bihealth/varfish-db-downloader/issues/86)) ([16edd9b](https://www.github.com/bihealth/varfish-db-downloader/commit/16edd9b305bc2b16d9a79aa4686ff0f8cb3fb4a0))
* small adjustments to reduce data list ([#48](https://www.github.com/bihealth/varfish-db-downloader/issues/48)) ([e899051](https://www.github.com/bihealth/varfish-db-downloader/commit/e899051d01685b8b0c5720fb1973582b8f675742))
2 changes: 1 addition & 1 deletion version.txt
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1 +1 @@
v0.3.0
1.0.0
Loading