v2: Update to new observable placeholder specification#393
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dweindl merged 1 commit intoPEtab-dev:developfrom Jul 2, 2025
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v2: Update to new observable placeholder specification#393dweindl merged 1 commit intoPEtab-dev:developfrom
dweindl merged 1 commit intoPEtab-dev:developfrom
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Codecov ReportAttention: Patch coverage is
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## develop #393 +/- ##
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- Coverage 74.00% 73.97% -0.04%
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Files 58 58
Lines 6470 6489 +19
Branches 1115 1120 +5
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+ Hits 4788 4800 +12
- Misses 1260 1264 +4
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dilpath
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Jul 1, 2025
petab/v2/petab1to2.py
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| # the current sorting will fail for 10+ placeholders, but who does | ||
| # that anyway? | ||
| return v2.C.PARAMETER_SEPARATOR.join( | ||
| sorted( | ||
| str(sym) | ||
| for sym in expr.free_symbols | ||
| if sym.is_Symbol and pattern.match(str(sym)) | ||
| ) | ||
| ) |
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What causes failure for 10+ placeholders?
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Lexicographical sorting:
In[1]: list(sorted(["observableParameter1_foo", "observableParameter10_foo"]))
Out[1]: ['observableParameter10_foo', 'observableParameter1_foo']
Well, not the sorting itself will fail, but the placeholder order won't match the override order in the measurement table anymore.
Adapt to the changes in PEtab-dev/PEtab#625. Placeholders are now listed explicitly. Closes PEtab-dev#390.
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Adapt to the changes in PEtab-dev/PEtab#625.
Placeholders are now listed explicitly.
Closes #390.