From fb253afaef7f487d3d34e89f27a6a32324162e81 Mon Sep 17 00:00:00 2001 From: Jim Schaff Date: Tue, 18 Aug 2026 22:25:25 -0400 Subject: [PATCH] =?UTF-8?q?docs(release):=20cut=208.0.27.01=20=E2=80=94=20?= =?UTF-8?q?changelog=20and=208.0.0=20notes?= MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit Two user-facing items. The BioModels Database tab stopped warning people off 55 models it can open perfectly well: the supported/not-supported list was hand-curated, last touched in May 2025, and drifted further with the import fixes in 8.0.26.01. It is now derived from the nightly run over the real collection (#1990). And saving a model can no longer be broken by the server's own housekeeping. A save writes a model's parts in several transactions and links them in a later one, so a part briefly belongs to nothing; the cleanup sweep that removes parts belonging to nothing collected it there and failed the save with ORA-02291. Production hit it twice in two weeks (#1993, issues #1992 and #1961). Co-Authored-By: Claude Opus 5 (1M context) Claude-Session: https://claude.ai/code/session_01HYdenYzMw35USHDQEATGVq --- CHANGELOG.md | 36 ++++++++++++++++++++++++++++++++++++ release-notes/major/8.0.0.md | 10 ++++++++++ 2 files changed, 46 insertions(+) diff --git a/CHANGELOG.md b/CHANGELOG.md index c7fcbc149a..1285281b3d 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -16,6 +16,42 @@ followed by flat Keep-a-Changelog categories. API consumers should scan _(Release-manager scratchpad. Populated at release-cut time.)_ +## [8.0.27.01] - 2026-08-18 + +**Highlights.** The desktop's BioModels Database tab stops steering people away from models +VCell can actually open: 55 of the 1057 entries were marked "not compatible with vCell" when +they import perfectly well, a list last curated by hand in May 2025 and further out of date +after the import fixes in 8.0.26.01. It is now derived from the nightly run over the real +collection, and a test fails if the two ever disagree. Separately, saving a model can no +longer be broken by the server's own housekeeping: a cleanup sweep that runs every fifteen +minutes could delete a row a save was still in the middle of writing, failing the save with a +database integrity error. + +### Fixed +- The BioModels Database tab marks 55 more models supported — they always imported, the list + said otherwise. Three that it claimed were supported and that VCell cannot open are now + marked accordingly. Supported goes from 928 to 983 of 1057. (#1990) +- Saving a model no longer fails with `ORA-02291: integrity constraint violated - parent key + not found`. Saving a BioModel writes its parts in several transactions and links them in a + later one, so for a fraction of a second a freshly written part belongs to nothing yet — and + the housekeeping sweep that removes parts belonging to nothing would collect it, breaking the + save. Rows are now left alone for an hour before they can be collected. Production hit this + twice in the two weeks before the fix. (#1993, issue #1992) +- The same race aborted the housekeeping sweep itself from the other side, with `ORA-02292: + child record found`, a few times a day. (#1993, issue #1961) + +### Added +- Internal: the BioModels Database supported-model list is regenerated from the nightly results + rather than hand-maintained, and `BioModelsNetInfoTest` fails when the checked-in list and the + nightly disagree, so it cannot silently rot as the importer improves. (#1990) +- Internal: the cleanup sweep is now covered in both SQL dialects — against PostgreSQL on every + push, and against a real Oracle in a new `Oracle_IT` regression group gated by the merge queue + and the nightly. Its SQL is assembled by string concatenation and had no test at all, in + either dialect. (#1993) + +### Notes for API consumers +No API changes. + ## [8.0.26.01] - 2026-08-18 **Highlights.** More published models import. A parameter in an SBML model may depend on a diff --git a/release-notes/major/8.0.0.md b/release-notes/major/8.0.0.md index cf6f0e7587..0b46b88629 100644 --- a/release-notes/major/8.0.0.md +++ b/release-notes/major/8.0.0.md @@ -202,6 +202,16 @@ thread-safety fix in unit-of-measurement formatting.)_ construct and where. An expression referring to a reaction — which SBML defines as that reaction's rate — reported only that a name was "not found", which reads like a typo and mentions neither rates nor the unsupported construct (8.0.26.01). +- The BioModels Database tab no longer warns you off models VCell can open. The + supported/not-supported list behind it was curated by hand and had drifted: 55 of + the 1057 entries were marked "not compatible with vCell" when they import fine. + It is now derived from the nightly run over the real collection, so it keeps pace + with the importer instead of aging (8.0.27.01). +- Saving a model can no longer be broken by the server's own housekeeping. A cleanup + sweep removes model parts that belong to nothing; because a save writes its parts + before linking them together, a part could be collected in the moment between, and + the save failed with a database integrity error. Parts are now left alone for an + hour before they can be collected (8.0.27.01). ## API and integration changes