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Fix/sparql parsing updates #871

Merged
merged 4 commits into from
Aug 21, 2024
Merged

Fix/sparql parsing updates #871

merged 4 commits into from
Aug 21, 2024

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dpetran
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@dpetran dpetran commented Aug 20, 2024

A handful of tests and fixes for SPARQL query support.

This was working as long as all the patterns were node patterns, but if you have
non-node patterns then those need to be in a sequence.
@dpetran dpetran requested a review from a team August 20, 2024 19:52
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@dpetran dpetran merged commit bbbd116 into main Aug 21, 2024
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@dpetran dpetran deleted the fix/sparql-parsing-updates branch August 21, 2024 17:46
bplatz added a commit that referenced this pull request Aug 22, 2024
commit 7953e7e
Merge: bbbd116 770c53f
Author: Daniel Petranek <dpetranek@flur.ee>
Date:   Wed Aug 21 22:46:41 2024 -0500

    Merge pull request #872 from fluree/fix/sparql-numeric-exprs

    support whitespace in additive expressions

commit 770c53f
Author: Daniel Petranek <dpetranek@flur.ee>
Date:   Wed Aug 21 14:45:23 2024 -0500

    support whitespace in additive expressions

commit bbbd116
Merge: 9cf80f8 d03f791
Author: Daniel Petranek <dpetranek@flur.ee>
Date:   Wed Aug 21 12:46:56 2024 -0500

    Merge pull request #871 from fluree/fix/sparql-parsing-updates

    Fix/sparql parsing updates

commit d03f791
Author: Daniel Petranek <dpetranek@flur.ee>
Date:   Tue Aug 20 13:59:48 2024 -0500

    allow whitespace after limit/offset clauses

commit 48e4c2b
Author: Daniel Petranek <dpetranek@flur.ee>
Date:   Tue Aug 20 14:00:05 2024 -0500

    put union patterns into a sequence

    This was working as long as all the patterns were node patterns, but if you have
    non-node patterns then those need to be in a sequence.

commit 7aaba85
Author: Daniel Petranek <dpetranek@flur.ee>
Date:   Tue Aug 20 11:39:46 2024 -0500

    handle UnaryExpressions explicitly

commit a1da5e2
Author: Daniel Petranek <dpetranek@flur.ee>
Date:   Tue Aug 20 11:26:17 2024 -0500

    accept lower case sparql functions

commit 9cf80f8
Merge: 02e070a 9848819
Author: Ben Lamothe <blamothe@flur.ee>
Date:   Mon Aug 19 17:54:40 2024 +0000

    Merge pull request #862 from fluree/refactor/id-datatype

    Use "@id" as the data type for IRIs

commit 02e070a
Merge: 18cfa46 2bee4ff
Author: JaceRockman <79335885+JaceRockman@users.noreply.github.com>
Date:   Mon Aug 19 11:59:57 2024 -0500

    Merge pull request #823 from fluree/feature/multiple-reasoner-sources2

    Feature/multiple reasoner sources2

commit 9848819
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 21:00:23 2024 -0400

    set datatype for @type and rdfs:Class to @id

commit e1140e4
Merge: 6bfd485 a5d4167
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 20:50:56 2024 -0400

    Merge branch 'fix/serialize-schema-sets' into refactor/id-datatype

commit 6bfd485
Merge: 1bf9507 18cfa46
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 20:50:15 2024 -0400

    Merge remote-tracking branch 'origin/main' into refactor/id-datatype

commit a5d4167
Merge: 6689e0d 18cfa46
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 20:30:27 2024 -0400

    Merge remote-tracking branch 'origin/main' into fix/serialize-schema-sets

commit 6689e0d
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 20:29:51 2024 -0400

    cleanup

commit 35c87ec
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 20:17:23 2024 -0400

    slightly better name

commit f761661
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 20:15:16 2024 -0400

    turn explanatory comment into ns docstring

commit bb5997a
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 20:14:40 2024 -0400

    ensure that @type and rdfs:Class have complete property maps

commit ee8daba
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 16:34:03 2024 -0400

    follow argument order convention

commit 68783f1
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 15:44:59 2024 -0400

    remove unused function and binding

commit 50fbaa1
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 13:53:35 2024 -0400

    follow argument order conventions

commit d905c91
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 13:49:13 2024 -0400

    cleanup

commit cebc79a
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 12:30:42 2024 -0400

    cleanup

commit 2b73725
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 16 11:23:04 2024 -0400

    clarify explanatory comment

commit 2bee4ff
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Wed Aug 14 12:03:55 2024 -0500

    Throw warning instead of error on duplicate rules

commit 40b96f3
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Wed Aug 14 12:02:33 2024 -0500

    Clean up restrict-db and remove deduplicate function

commit 18109b2
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Wed Aug 14 11:47:09 2024 -0500

    Fix load-aliased-rule-dbs function

commit 1bf9507
Author: Benjamin Lamothe <bl@732.one>
Date:   Wed Aug 14 07:50:28 2024 -0400

    use id iri constant

commit d84c779
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 9 17:48:11 2024 -0400

    add back anyURI as a default data type

commit a184e0a
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 9 17:46:20 2024 -0400

    update hashes in tests

commit c0c27b6
Author: Benjamin Lamothe <bl@732.one>
Date:   Fri Aug 9 17:28:32 2024 -0400

    use "@id" instead of "xsd:anyURI" as the datatype for iris

commit 5347fb4
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Mon Aug 12 17:33:18 2024 -0500

    Fix formatting and remove println from test

commit 626d8c2
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Fri Aug 9 10:00:08 2024 -0500

    Make calls to recur single lines

commit 6a6adcd
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Thu Aug 8 14:00:17 2024 -0500

    Fix extract-rules-from-dbs so that it uses go-try

commit 2f5cb76
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Thu Aug 8 13:31:31 2024 -0500

    Reduce nesting in rules-from-dbs with new function

commit 6a3b336
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Thu Aug 8 13:21:18 2024 -0500

    Fix duplicate quere.exec requirement

commit 775540a
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Tue Aug 6 12:56:00 2024 -0500

    Improve async loops to be more idiomatic

commit 7e85bfb
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Mon Aug 5 17:18:24 2024 -0500

    Remove mixed usage of pipeline-async and <?

commit 53e3c74
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Thu Aug 1 11:37:42 2024 -0500

    Multiple fixes to make code more idiomatic

commit 88d62df
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Tue Jul 23 15:42:37 2024 -0700

    Remove duplicate function declarations

commit 192d907
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Tue Jul 23 14:35:04 2024 -0700

    Remove flake.reasoner dependency of itself

commit 97c1ea6
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Tue Jul 23 14:27:02 2024 -0700

    Warn when duplicate ids are detected

    Now overwrites duplicate ids instead of deduplicating them.

commit ce33dcc
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Tue Jul 23 14:02:50 2024 -0700

    Improve db vs graph identification

commit a24d8e8
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Tue Jul 23 11:19:41 2024 -0700

    Make compatible with new reasoner structure

commit 015b478
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Fri Jul 12 13:17:05 2024 -0700

    Add docstring to deduplicate function

commit 6c01ebc
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Fri Jul 12 12:40:09 2024 -0700

    Fix reference to api.query

commit 6195824
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Fri Jul 12 12:22:57 2024 -0700

    Move api.query to query.api

commit c00b819
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Thu Jul 11 11:46:38 2024 -0700

    Reason with a list of rule-sources not dbs and graphs

commit 3b3c37a
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Tue Jun 25 13:04:11 2024 -0700

    Update sample data and tests for owl reasoning tests

commit 4e16c86
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Fri Jun 21 14:24:54 2024 -0500

    Handle duplicate rule ids from multiple sources

    When two sources include rules with the same @id, deduplicate them
    and use them all when performing reasoning.

commit 799f0f3
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Thu Jun 20 15:19:25 2024 -0500

    Add negative test cases for multiple rule sources

    This ensures that if something breaks that would end up always
    returning a success, then we will catch that as a failure as well.

commit 2bba7dd
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Thu Jun 20 15:06:32 2024 -0500

    Add datalog tests for multiple rule sources

    Additionally, fix the json-ld api reason function.

commit 568459b
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Wed Jun 19 15:57:15 2024 -0500

    Fix tests and api usage of reasoner/reason

commit dd0d8aa
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Wed Jun 19 15:28:30 2024 -0500

    Make parse-rule-dbs and rules-from-dbs asynchronous

commit 68dc6d0
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Wed Jun 19 11:24:37 2024 -0500

    Allow reasoning with ledger names as rule sources

    Only works with query-connection since you need a conn to get a db
    from a ledger name.

commit 10d8f0c
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Tue Jun 18 15:02:03 2024 -0500

    Aggregate rules from graphs and dbs when reasoning

commit d2e7f2c
Author: Jace Rockman <jacemaverick5@gmail.com>
Date:   Tue Jun 11 14:33:40 2024 -0500

    Include reasoning logic when restricting db
bplatz added a commit that referenced this pull request Aug 22, 2024
commit a5929ff
Author: Brian Platz <bplatz@gmail.com>
Date:   Thu Aug 22 09:35:26 2024 -0400

    Revert "Squashed commit of the following:"

    This reverts commit 60a50a2.

commit 60a50a2
Author: Brian Platz <bplatz@gmail.com>
Date:   Thu Aug 22 09:32:40 2024 -0400

    Squashed commit of the following:

    commit 7953e7e
    Merge: bbbd116 770c53f
    Author: Daniel Petranek <dpetranek@flur.ee>
    Date:   Wed Aug 21 22:46:41 2024 -0500

        Merge pull request #872 from fluree/fix/sparql-numeric-exprs

        support whitespace in additive expressions

    commit 770c53f
    Author: Daniel Petranek <dpetranek@flur.ee>
    Date:   Wed Aug 21 14:45:23 2024 -0500

        support whitespace in additive expressions

    commit bbbd116
    Merge: 9cf80f8 d03f791
    Author: Daniel Petranek <dpetranek@flur.ee>
    Date:   Wed Aug 21 12:46:56 2024 -0500

        Merge pull request #871 from fluree/fix/sparql-parsing-updates

        Fix/sparql parsing updates

    commit d03f791
    Author: Daniel Petranek <dpetranek@flur.ee>
    Date:   Tue Aug 20 13:59:48 2024 -0500

        allow whitespace after limit/offset clauses

    commit 48e4c2b
    Author: Daniel Petranek <dpetranek@flur.ee>
    Date:   Tue Aug 20 14:00:05 2024 -0500

        put union patterns into a sequence

        This was working as long as all the patterns were node patterns, but if you have
        non-node patterns then those need to be in a sequence.

    commit 7aaba85
    Author: Daniel Petranek <dpetranek@flur.ee>
    Date:   Tue Aug 20 11:39:46 2024 -0500

        handle UnaryExpressions explicitly

    commit a1da5e2
    Author: Daniel Petranek <dpetranek@flur.ee>
    Date:   Tue Aug 20 11:26:17 2024 -0500

        accept lower case sparql functions

    commit 9cf80f8
    Merge: 02e070a 9848819
    Author: Ben Lamothe <blamothe@flur.ee>
    Date:   Mon Aug 19 17:54:40 2024 +0000

        Merge pull request #862 from fluree/refactor/id-datatype

        Use "@id" as the data type for IRIs

    commit 02e070a
    Merge: 18cfa46 2bee4ff
    Author: JaceRockman <79335885+JaceRockman@users.noreply.github.com>
    Date:   Mon Aug 19 11:59:57 2024 -0500

        Merge pull request #823 from fluree/feature/multiple-reasoner-sources2

        Feature/multiple reasoner sources2

    commit 9848819
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 21:00:23 2024 -0400

        set datatype for @type and rdfs:Class to @id

    commit e1140e4
    Merge: 6bfd485 a5d4167
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 20:50:56 2024 -0400

        Merge branch 'fix/serialize-schema-sets' into refactor/id-datatype

    commit 6bfd485
    Merge: 1bf9507 18cfa46
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 20:50:15 2024 -0400

        Merge remote-tracking branch 'origin/main' into refactor/id-datatype

    commit a5d4167
    Merge: 6689e0d 18cfa46
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 20:30:27 2024 -0400

        Merge remote-tracking branch 'origin/main' into fix/serialize-schema-sets

    commit 6689e0d
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 20:29:51 2024 -0400

        cleanup

    commit 35c87ec
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 20:17:23 2024 -0400

        slightly better name

    commit f761661
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 20:15:16 2024 -0400

        turn explanatory comment into ns docstring

    commit bb5997a
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 20:14:40 2024 -0400

        ensure that @type and rdfs:Class have complete property maps

    commit ee8daba
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 16:34:03 2024 -0400

        follow argument order convention

    commit 68783f1
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 15:44:59 2024 -0400

        remove unused function and binding

    commit 50fbaa1
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 13:53:35 2024 -0400

        follow argument order conventions

    commit d905c91
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 13:49:13 2024 -0400

        cleanup

    commit cebc79a
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 12:30:42 2024 -0400

        cleanup

    commit 2b73725
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 16 11:23:04 2024 -0400

        clarify explanatory comment

    commit 2bee4ff
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Wed Aug 14 12:03:55 2024 -0500

        Throw warning instead of error on duplicate rules

    commit 40b96f3
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Wed Aug 14 12:02:33 2024 -0500

        Clean up restrict-db and remove deduplicate function

    commit 18109b2
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Wed Aug 14 11:47:09 2024 -0500

        Fix load-aliased-rule-dbs function

    commit 1bf9507
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Wed Aug 14 07:50:28 2024 -0400

        use id iri constant

    commit d84c779
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 9 17:48:11 2024 -0400

        add back anyURI as a default data type

    commit a184e0a
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 9 17:46:20 2024 -0400

        update hashes in tests

    commit c0c27b6
    Author: Benjamin Lamothe <bl@732.one>
    Date:   Fri Aug 9 17:28:32 2024 -0400

        use "@id" instead of "xsd:anyURI" as the datatype for iris

    commit 5347fb4
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Mon Aug 12 17:33:18 2024 -0500

        Fix formatting and remove println from test

    commit 626d8c2
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Fri Aug 9 10:00:08 2024 -0500

        Make calls to recur single lines

    commit 6a6adcd
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Thu Aug 8 14:00:17 2024 -0500

        Fix extract-rules-from-dbs so that it uses go-try

    commit 2f5cb76
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Thu Aug 8 13:31:31 2024 -0500

        Reduce nesting in rules-from-dbs with new function

    commit 6a3b336
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Thu Aug 8 13:21:18 2024 -0500

        Fix duplicate quere.exec requirement

    commit 775540a
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Tue Aug 6 12:56:00 2024 -0500

        Improve async loops to be more idiomatic

    commit 7e85bfb
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Mon Aug 5 17:18:24 2024 -0500

        Remove mixed usage of pipeline-async and <?

    commit 53e3c74
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Thu Aug 1 11:37:42 2024 -0500

        Multiple fixes to make code more idiomatic

    commit 88d62df
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Tue Jul 23 15:42:37 2024 -0700

        Remove duplicate function declarations

    commit 192d907
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Tue Jul 23 14:35:04 2024 -0700

        Remove flake.reasoner dependency of itself

    commit 97c1ea6
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Tue Jul 23 14:27:02 2024 -0700

        Warn when duplicate ids are detected

        Now overwrites duplicate ids instead of deduplicating them.

    commit ce33dcc
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Tue Jul 23 14:02:50 2024 -0700

        Improve db vs graph identification

    commit a24d8e8
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Tue Jul 23 11:19:41 2024 -0700

        Make compatible with new reasoner structure

    commit 015b478
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Fri Jul 12 13:17:05 2024 -0700

        Add docstring to deduplicate function

    commit 6c01ebc
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Fri Jul 12 12:40:09 2024 -0700

        Fix reference to api.query

    commit 6195824
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Fri Jul 12 12:22:57 2024 -0700

        Move api.query to query.api

    commit c00b819
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Thu Jul 11 11:46:38 2024 -0700

        Reason with a list of rule-sources not dbs and graphs

    commit 3b3c37a
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Tue Jun 25 13:04:11 2024 -0700

        Update sample data and tests for owl reasoning tests

    commit 4e16c86
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Fri Jun 21 14:24:54 2024 -0500

        Handle duplicate rule ids from multiple sources

        When two sources include rules with the same @id, deduplicate them
        and use them all when performing reasoning.

    commit 799f0f3
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Thu Jun 20 15:19:25 2024 -0500

        Add negative test cases for multiple rule sources

        This ensures that if something breaks that would end up always
        returning a success, then we will catch that as a failure as well.

    commit 2bba7dd
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Thu Jun 20 15:06:32 2024 -0500

        Add datalog tests for multiple rule sources

        Additionally, fix the json-ld api reason function.

    commit 568459b
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Wed Jun 19 15:57:15 2024 -0500

        Fix tests and api usage of reasoner/reason

    commit dd0d8aa
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Wed Jun 19 15:28:30 2024 -0500

        Make parse-rule-dbs and rules-from-dbs asynchronous

    commit 68dc6d0
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Wed Jun 19 11:24:37 2024 -0500

        Allow reasoning with ledger names as rule sources

        Only works with query-connection since you need a conn to get a db
        from a ledger name.

    commit 10d8f0c
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Tue Jun 18 15:02:03 2024 -0500

        Aggregate rules from graphs and dbs when reasoning

    commit d2e7f2c
    Author: Jace Rockman <jacemaverick5@gmail.com>
    Date:   Tue Jun 11 14:33:40 2024 -0500

        Include reasoning logic when restricting db

commit e681284
Author: Brian Platz <bplatz@gmail.com>
Date:   Wed Aug 21 06:21:04 2024 -0400

    update json-ld library

commit 74bd598
Author: Brian Platz <bplatz@gmail.com>
Date:   Wed Aug 21 06:20:55 2024 -0400

    stage-triples tx api, dry things up
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2 participants