jebus/enviPy-bayer
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217 Commits 20 Branches 8 Tags
3b71184631367d6d61b5995b284e5c169dfd1368
Commit Graph
33 Commits
Author SHA1 Message Date
Tim Lorsbach 3b71184631 adjusted migration
CI / test (pull_request) Failing after 27s
Details
API CI / api-tests (pull_request) Failing after 41s
Details 
Initial bayer app

Show Pack Classification

Adjusted docker compose to bayer specifics

Adjusted Dockerfile for Bayer

Adding secret flags to group, add secret pools to packages

Adjusted View for Package creation

Prep configs, added Package Create Modal

wip

More on PES

wip

wip

Wip

minor

PW interactions

API PES

wip

Make Select Widget reflect required

make required generallay available

Update UI if pathway mode is set to build

Added ais

circle adjustments

Initial Zoom, fix AD Creation

wip

auth log, bb4g fix

missing import

Added viz hint if PES is part of reaction

Add Edge check for pes

flip boolean

...

pes

Added extra

...

In / Out Edges Viz, Submitting Button Text

...

Make PES Link clickable

Return proper http response instead of error

Fixed error return, removed unused options

Fix PES Link HTML for other entities

Fixed molfile assignment, adjusted Export

Package Export/Import cycle

highlight Description links

implemented non persistent

Harmonised proposed field in Json output

Added pesLink field to PW Api output

PES Fields in API Output

removed debug

Fix Classification import, Fix PES Deserialization

underline pes link in templates

Fix alter name/desc for node, make /node /edge funcitonal

provide setting link and copy button

Implemented Compound Names / Reaction Names View Option

Unconnected Nodes

Make links thicker, reduce timeout trigger time

Show proposed info in popover

Pathway Build no stereo removal

Include probs in reaction name option viz

Detect clicks outside nodes/edges

Provide proper Error Pages

View Package Perm

wip

sync

Auth log

auth log leftovers

...

secret packs viz

auth log for api

model stats

Fix Package Adjustment

Adjust Group Auth Log

Fix Secret image size in Navbar

leftover

...

minor
 2026-08-19 20:57:12 +02:00
jebusandTim Lorsbach ac8df05913 [Feature] Attach AdditionalInformation to Nodes (#428) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#428
 2026-07-20 09:32:28 +12:00
jebusandTim Lorsbach 3566571b42 [Chore] Leftovers (#426) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#426
 2026-07-16 21:33:12 +12:00
jebusandTim Lorsbach 72a63b4876 [Feature] Sync Features from Client Repo (#425) 
- New PackageImporter
- Fix persisting Molfile on Structure creation
- Add NonPersistent Prediction
- Pathway View Options
- Edit Node Fix

Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#425
 2026-07-16 07:50:46 +12:00
jebusandTim Lorsbach 2c2437e3f5 [Feature] Generate Compounds by Molfile (#423) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#423
 2026-07-15 23:56:24 +12:00
jebusandTim Lorsbach dba6514013 [Chore] Package Export, Blanks for fields, Styling (#421) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#421
 2026-07-02 20:12:26 +12:00
jebusandTim Lorsbach 868bbf5c05 [Fix] False as multi_step default in legacy API (#406) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#406
 2026-05-29 08:12:52 +12:00
jebusandTim Lorsbach be5ee1d1d7 [Fix] Propagate multi_step in Edge.create to Reaction.create to ensure deduplication is working (#405) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#405
 2026-05-29 07:39:32 +12:00
jebusandTim Lorsbach 1a9f1cf9af [Fix] Legacy API Node Depth Parsing, description validation in Reaction.create (#402) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#402
 2026-05-28 09:53:39 +12:00
jebusandTim Lorsbach c7c7e17e43 [Feature] Implement legacy endpoints to enable copy via python client (#400) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#400
 2026-05-28 01:41:28 +12:00
jebusandTim Lorsbach 674e10c7fa [Fix] Legacy API Package Endpoint, Pepper Unit in Pathway View (#399) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#399
 2026-05-27 21:09:17 +12:00
jebusandTim Lorsbach 8079b80d57 [Fix] Fix Typo in multi_step assignment (#397) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#397
 2026-05-21 09:56:21 +12:00
jebusandTim Lorsbach 76e63fda2c [Fix] Fix BART Upload (#396) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#396
 2026-05-21 03:16:02 +12:00
jebusandTim Lorsbach b39fc7eaf8 [Fix] Update Node depth when adding new Edges to a Pathway (#384) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#384
 2026-05-12 09:40:35 +12:00
jebusandTim Lorsbach 8498e59fa1 [Feature] Changes required for non public tenants (#370) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#370
 2026-04-22 06:08:39 +12:00
jebusandTim Lorsbach f7c45b8015 [Feature] Add legacy api endpoint to mimic ReferringScenarios (#362) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#362
 2026-03-17 19:44:47 +13:00
jebusandTim Lorsbach e0764126e3 [Fix] Scenario Review Status + Depth issues (#351) 
https://envipath.org/api/legacy/package/32de3cf4-e3e6-4168-956e-32fa5ddb0ce1/pathway/1d537657-298c-496b-9e6f-2bec0cbe0678

-> Node.depth can be float for Dummynodes
-> Scenarios in Edge.d3_json were lacking a reviewed flag

Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#351
 2026-03-12 08:28:20 +13:00
jebusandTim Lorsbach b737fc93eb [Feature] Search for Permissions, Prep Compound / Structure to be extended, Prep Template overwrites (#347) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#347
 2026-03-11 11:27:15 +13:00
jebusandTim Lorsbach 6e00926371 [Feature] Scenario and Additional Information creation via enviPath-python, Add Half Lifes to API Output, Fix source/target ids in legacy API (#340) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#340
 2026-03-06 07:20:18 +13:00
jebusandTim Lorsbach cc9598775c [Fix] Fix Perm for creating entities (#341) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#341
 2026-02-27 03:56:33 +13:00
jebusandTim Lorsbach d2c2e643cb [Fix] Compound Grouping, Identity prediction of enviFormer, Setting params (#337) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#337
 2026-02-20 10:14:28 +13:00
jebusandTim Lorsbach 5565b9cb9e [Fix] UI bugs, Registrations Mail, BTRules Popup, Legacy API fixes (#309) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#309
 2026-01-29 11:13:34 +13:00
jebusandTim Lorsbach ab0b5a5186 [Feature] Leftovers after Release (#303) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#303
 2026-01-22 10:26:38 +13:00
t03i 5f5ae76182 [Fix] Fix Prediction Spinner, ensure proper pathway status is set 
Fixes Spinner and status message display on pathway page

Reviewed-on: enviPath/enviPy#291
Co-authored-by: Tobias O <tobias.olenyi@envipath.com>
Co-committed-by: Tobias O <tobias.olenyi@envipath.com>
 2026-01-15 23:09:12 +13:00
jebusandTim Lorsbach 54f8302104 [FIX] Fixed Search Output, Legacy API Model Endpoint, Handle ObjectsDoesNotExists in views (#297) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#297
 2026-01-15 20:39:54 +13:00
jebusandTim Lorsbach d2d475b990 [Feature] Show Multi Gen Eval + Batch Prediction (#267) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#267
 2025-12-15 08:48:28 +13:00
jebusandTim Lorsbach 648ec150a9 [Feature] Engineer Pathway (#256) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#256
 2025-12-10 07:35:42 +13:00
jebusandTim Lorsbach b6c35fea76 [Feature] Search API Endpoint (#227) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#227
 2025-11-20 09:56:11 +13:00
jebusandTim Lorsbach 67b1baa5b0 [Feature] Legacy API (#224) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#224
 2025-11-19 20:45:16 +13:00
jebusandTim Lorsbach a8554c903c [Enhancement] Swappable Packages (#216) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#216
Reviewed-by: liambrydon <lbry121@aucklanduni.ac.nz>
Reviewed-by: Tobias O <tobias.olenyi@envipath.com>
 2025-11-14 21:42:39 +13:00
jebusandTim Lorsbach afeb56622c [Chore] Linted Files (#150) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#150
 2025-10-09 07:25:13 +13:00
jebusandTim Lorsbach 3f2b046bd6 [Feature] More on Legacy API (#142) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#142
 2025-10-03 00:07:30 +13:00
jebusandTim Lorsbach 4158bd36cb [Feature] Legacy API Layer (#80) 
Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#80
 2025-09-03 01:35:51 +12:00