Record what each annotation rests on, and make every output say the same thing by htsugawa · Pull Request #800 · systemsomicslab/MsdialWorkbench

Commits on Sep 9, 2026

Make the round-trip witness able to fail
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
565944c
Give a match result somewhere to record what its evidence was
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
a6aa873
Record which similarity terms a run actually measured
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
e89c44a
Record what kind of evidence each annotation rests on
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
7f6da2e
Record how many candidates a run actually scored
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
b713ab2
Pin the answers phase 1b has to change
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
359b400

Commits on Sep 10, 2026

Stop scoring retention time against references that have none
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
5950760
Cap the retention match verdict without capping the score
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
45789b5
Let a retention-time disagreement cost the match, not the candidate
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
a3d9e37
Export the annotation evidence record, and check header/content parity
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
9a8a45d
Grade a compared spectrum: matched, fell short, or explained nothing
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
1c9ddd8
Publish a compound name in mzTab-M, and the reliability beside it
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
964ec69

Commits on Sep 14, 2026

Name the two directions of in-silico work, and publish them as one
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
5bded83

Commits on Sep 15, 2026

Let what was compared outrank what the analyst listed first
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
3a2ae8c
Stop dividing a direct-infusion score by terms nobody measured
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
0547706
Rank a calculated candidate above one that overreaches a bare mass
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
3895e25
Say whether a library's spectra were acquired or computed
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
634a0eb
Let a run with no GUI say which kind of library it searched
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
a62898f
Show one compound name in all four files, and send the evidence with the spectrum
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
e8d8ca5
Refuse to export a run that processed nothing, and declare the library it used
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
9ea428e
Let a private library say what it is without saying where it lives
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
d1ba6b5
Let a build say which build it is
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
c3a77b8
Stop telling a developer their newer build is out of date
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
cd5ff71
Retire the three stale version literals
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
f400521
Say which method-file parameters had no effect
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
4fb297b
Print the version where its reader can still find it
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
c99b691

Commits on Sep 20, 2026

A method-file value the reader cannot read must not report as applied
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
61a0f1e
Write what happened to every method-file key beside the method file
$DESKTOP-382ETUR\Hiroshi Tsugawa$
DESKTOP-382ETUR\Hiroshi Tsugawa
and
claude
committed
53ac59d
Merge remote-tracking branch 'origin/master' into feature/annotation-evidence-record
DESKTOP-382ETUR\Hiroshi Tsugawa
committed
9cbf058

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Record what each annotation rests on, and make every output say the same thing - #800

Record what each annotation rests on, and make every output say the same thing#800
htsugawa merged 29 commits into
masterfrom
feature/annotation-evidence-record

Commits on Sep 9, 2026

Make the round-trip witness able to fail

Give a match result somewhere to record what its evidence was

Record which similarity terms a run actually measured

Record what kind of evidence each annotation rests on

Record how many candidates a run actually scored

Pin the answers phase 1b has to change

Commits on Sep 10, 2026

Stop scoring retention time against references that have none

Cap the retention match verdict without capping the score

Let a retention-time disagreement cost the match, not the candidate

Export the annotation evidence record, and check header/content parity

Grade a compared spectrum: matched, fell short, or explained nothing

Publish a compound name in mzTab-M, and the reliability beside it

Commits on Sep 14, 2026

Name the two directions of in-silico work, and publish them as one

Commits on Sep 15, 2026

Let what was compared outrank what the analyst listed first

Stop dividing a direct-infusion score by terms nobody measured

Rank a calculated candidate above one that overreaches a bare mass

Say whether a library's spectra were acquired or computed

Let a run with no GUI say which kind of library it searched

Show one compound name in all four files, and send the evidence with the spectrum

Refuse to export a run that processed nothing, and declare the library it used

Let a private library say what it is without saying where it lives

Let a build say which build it is

Stop telling a developer their newer build is out of date

Retire the three stale version literals

Say which method-file parameters had no effect

Print the version where its reader can still find it

Commits on Sep 20, 2026

A method-file value the reader cannot read must not report as applied

Write what happened to every method-file key beside the method file

Merge remote-tracking branch 'origin/master' into feature/annotation-evidence-record