8ed3b506cc
make required generallay available
API CI / api-tests (pull_request) Failing after 14s
CI / test (pull_request) Failing after 30s
2026-06-09 10:09:19 +02:00
ac297b2e25
Make Select Widget reflect required
API CI / api-tests (pull_request) Failing after 14s
CI / test (pull_request) Failing after 25s
2026-06-09 10:07:08 +02:00
e2da59634b
wip
CI / test (pull_request) Failing after 16s
API CI / api-tests (pull_request) Failing after 32s
2026-06-09 09:33:06 +02:00
f8d01e4477
API PES
2026-06-09 09:33:06 +02:00
d381effdaf
PW interactions
2026-06-09 09:33:06 +02:00
19d90b51eb
minor
2026-06-09 09:33:05 +02:00
cca121af21
Wip
2026-06-09 09:33:05 +02:00
74489094c9
adjusted migration
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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
2026-06-09 09:33:05 +02:00
14cfc1e4d7
[Feature] Integrate DOI Links, Handle Cycles in Pathway Viz ( #407 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#407
2026-06-03 06:00:38 +12:00
868bbf5c05
[Fix] False as multi_step default in legacy API ( #406 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#406
2026-05-29 08:12:52 +12:00
be5ee1d1d7
[Fix] Propagate multi_step in Edge.create to Reaction.create to ensure deduplication is working ( #405 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#405
2026-05-29 07:39:32 +12:00
20fd949dfd
[Fix] Implement legacy PFASConfidence object construction ( #404 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#404
2026-05-28 23:57:34 +12:00
c9b643fe6e
[Feature] Make JobLog Page Paginated ( #403 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#403
2026-05-28 23:01:27 +12:00
1a9f1cf9af
[Fix] Legacy API Node Depth Parsing, description validation in Reaction.create ( #402 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#402
2026-05-28 09:53:39 +12:00
c7c7e17e43
[Feature] Implement legacy endpoints to enable copy via python client ( #400 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#400
2026-05-28 01:41:28 +12:00
674e10c7fa
[Fix] Legacy API Package Endpoint, Pepper Unit in Pathway View ( #399 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#399
2026-05-27 21:09:17 +12:00
8079b80d57
[Fix] Fix Typo in multi_step assignment ( #397 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#397
2026-05-21 09:56:21 +12:00
76e63fda2c
[Fix] Fix BART Upload ( #396 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#396
2026-05-21 03:16:02 +12:00
1e43c298d2
[Fix] Simplify Depth adjustment ( #386 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#386
2026-05-12 21:04:56 +12:00
b39fc7eaf8
[Fix] Update Node depth when adding new Edges to a Pathway ( #384 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#384
2026-05-12 09:40:35 +12:00
a2fc9f72cb
[Feature] Make use of HalfLifeModel Enum ( #383 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#383
2026-05-12 09:23:56 +12:00
734b02767e
[Fix] Update plotting imports and thread handling in Pepper class ( #382 )
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- plt.subplot does not work reliably with async/ threads.
- Bug in thread run that would fail with env set (string to number)
Reviewed-on: enviPath/enviPy#382
Co-authored-by: Tobias O <tobias.olenyi@envipath.com >
Co-committed-by: Tobias O <tobias.olenyi@envipath.com >
2026-05-12 06:43:26 +12:00
9d70db2ca2
[Fix] Wrong indentation in welcome mail ( #373 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#373
2026-04-22 08:47:05 +12:00
fec26d0233
[Feature] Admin Actions for Activation and Affiliation Request ( #372 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#372
2026-04-22 08:36:31 +12:00
689f7998eb
[Dep] Updated enviFormer, additional information lib, aiohttp, fsspec ( #371 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#371
2026-04-22 06:38:31 +12:00
8498e59fa1
[Feature] Changes required for non public tenants ( #370 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#370
2026-04-22 06:08:39 +12:00
b508511cd6
Implement basic group listing and re-enabled group creation
2026-04-14 20:58:12 +02:00
877804c0ff
[Feature] Path prefixes ( #369 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#369
2026-04-14 21:59:29 +12:00
964574c700
[Feature] Biotransformer in enviPath ( #364 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#364
2026-04-10 00:00:13 +12:00
5029a8cda5
[Feature] Dockerized Setup ( #366 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#366
2026-04-07 20:06:46 +12:00
d06bd0d4fd
[Feature] Minimal IUCLID export ( #338 )
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This is an initial implementation that creates a working minimal .i6z document.
It passes schema validation and can be imported into IUCLID.
Caveat:
IUCLID files target individual compounds.
Pathway is not actually covered by the format.
It can be added in either soil or water and soil OECD endpoints.
**I currently only implemented the soil endpoint for all data.**
This sort of works, and I can report all degradation products in a pathway (not a nice view, but we can report many transformation products and add a diagram attachment in the future).
Adding additional information is an absolute pain, as we need to explicitly map each type of information to the relevant OECD field.
I use the XSD scheme for validation, but unfortunately the IUCLID parser is not fully compliant and requires a specific order, etc.
The workflow is: finding the AI structure from the XSD scheme -> make the scheme validation pass -> upload to IUCLID to get obscure error messages -> guess what could be wrong -> repeat 💣
New specifications get released once per year, so we will have to update accordingly.
I believe that this should be a more expensive feature, as it requires significant effort to uphold.
Currently implemented for root compound only in SOIL:
- Soil Texture 2
- Soil Texture 1
- pH value
- Half-life per soil sample / scenario (mapped to disappearance; not sure about that).
- CEC
- Organic Matter (only Carbon)
- Moisture content
- Humidity
<img width="2123" alt="image.png" src="attachments/d29830e1-65ef-4136-8939-1825e0959c62">
<img width="2124" alt="image.png" src="attachments/ac9de2ac-bf68-4ba4-b40b-82f810a9de93">
<img width="2139" alt="image.png" src="attachments/5674c7e6-865e-420e-974a-6b825b331e6c">
Reviewed-on: enviPath/enviPy#338
Co-authored-by: Tobias O <tobias.olenyi@envipath.com >
Co-committed-by: Tobias O <tobias.olenyi@envipath.com >
2026-04-07 19:46:12 +12:00
f7c45b8015
[Feature] Add legacy api endpoint to mimic ReferringScenarios ( #362 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#362
2026-03-17 19:44:47 +13:00
68aea97013
[Feature] Simple template extension mechanism ( #361 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#361
2026-03-16 21:06:20 +13:00
3cc7fa9e8b
[Fix] Add Captcha vars to Template ( #359 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#359
2026-03-13 11:46:34 +13:00
21f3390a43
[Feature] Add Captchas to avoid spam registrations ( #358 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#358
2026-03-13 11:36:48 +13:00
8cdf91c8fb
[Fix] Broken Model Creation ( #356 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#356
2026-03-12 11:34:14 +13:00
bafbf11322
[Fix] Broken Enzyme Links ( #353 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#353
2026-03-12 10:25:47 +13:00
f1a9456d1d
[Fix] enviFormer prediction ( #352 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#352
2026-03-12 08:49:44 +13:00
e0764126e3
[Fix] Scenario Review Status + Depth issues ( #351 )
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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
ef0c45b203
[Fix] Pepper display probability calculation ( #349 )
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Probability of persistent is now calculated to include very persistent.
Reviewed-on: enviPath/enviPy#349
Co-authored-by: Liam Brydon <lbry121@aucklanduni.ac.nz >
Co-committed-by: Liam Brydon <lbry121@aucklanduni.ac.nz >
2026-03-11 19:12:55 +13:00
b737fc93eb
[Feature] Search for Permissions, Prep Compound / Structure to be extended, Prep Template overwrites ( #347 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#347
2026-03-11 11:27:15 +13:00
d4295c9349
[Fix] bootstrap command now reflects new Scenario/AdditionalInformation structure ( #346 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#346
2026-03-07 03:14:28 +13:00
c6ff97694d
[Feature] PEPPER in enviPath ( #332 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#332
2026-03-06 22:11:22 +13:00
6e00926371
[Feature] Scenario and Additional Information creation via enviPath-python, Add Half Lifes to API Output, Fix source/target ids in legacy API ( #340 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#340
2026-03-06 07:20:18 +13:00
81cc612e69
[Feature] Populate Batch Predict Table by CSV ( #339 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#339
2026-03-06 03:15:44 +13:00
cc9598775c
[Fix] Fix Perm for creating entities ( #341 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#341
2026-02-27 03:56:33 +13:00
d2c2e643cb
[Fix] Compound Grouping, Identity prediction of enviFormer, Setting params ( #337 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#337
2026-02-20 10:14:28 +13:00
0ff046363c
[Fix] Fixed failing frontend tests due to renaming ( #335 )
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Co-authored-by: Tim Lorsbach <tim@lorsba.ch >
Reviewed-on: enviPath/enviPy#335
2026-02-17 03:09:32 +13:00
5150027f0d
[Fix] Login via email, prevent Usernames with certain chars
2026-02-16 13:58:06 +01:00
58ab5b33e3
[Fix] Filter Active Users ( #314 ) ( #329 )
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Adding users to a group or setting permissions on a package now filter for active users. Also any inactive members of group/package get marked as such.
<img width="490" alt="{3B906C71-F3AE-41E4-A61C-B8377D79F685}.png" src="attachments/09cf149a-9d7a-4560-8ce7-9f3487527ee2">
Reviewed-on: enviPath/enviPy#329
Co-authored-by: Liam Brydon <lbry121@aucklanduni.ac.nz >
Co-committed-by: Liam Brydon <lbry121@aucklanduni.ac.nz >
2026-02-12 20:20:16 +13:00
