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WIP: debug multisigfile test#445

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ctb wants to merge 94 commits intomainsourmash-bio/sourmash_plugin_branchwater:mainfrom fix_multisig_foosourmash-bio/sourmash_plugin_branchwater:fix_multisig_fooCopy head branch name to clipboard

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Commits on Aug 17, 2024

• refactor & rename & consolidate

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• remove 'lower'

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Commits on Aug 18, 2024

• Merge branch 'main' of github.com:sourmash-bio/sourmash_plugin_branchwater into ctb_misc_cleanup

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• add cargo doc output for private fn

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• Merge branch 'main' of github.com:sourmash-bio/sourmash_plugin_branchwater into ctb_misc2

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• add a few comments/docs

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• switch to dev version of sourmash

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• tracking

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• cleaner

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• cleanup

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• load rocksdb natively

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• foo

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Commits on Aug 19, 2024

• Merge branch 'main' of github.com:sourmash-bio/sourmash_plugin_branchwater into ctb_misc2

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• Merge branch 'main' of github.com:sourmash-bio/sourmash_plugin_branchwater into ctb_misc_cleanup

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• Merge branch 'ctb_misc_cleanup' into ctb_misc2

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• cargo fmt

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Commits on Aug 20, 2024

• upd

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• upd

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• fix fmt

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• MRG: create MultiCollection for collections that span multiple files (#434)

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• clippy fixes

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• compiling again

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• cleanup

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Commits on Aug 21, 2024

• bump sourmash to v0.15.1

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• Merge branch 'bump_sourmash' into ctb_misc2

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• check if is rocksdb

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• Merge branch 'main' of github.com:sourmash-bio/sourmash_plugin_branchwater into ctb_misc2

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• weird error

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• use remove_unwrap branch of sourmash

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• get index to work with MultiCollection

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• old bug now fixed

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• clippy, format, and fix

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• make names clearer

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• ditch MultiCollection for index, at least for now

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• testy testy

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• getting closer

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Commits on Aug 22, 2024

• update sourmash

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• mark failing tests

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Commits on Aug 24, 2024

• upd

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• cargo fmt

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• MRG: test exit from pairwise and multisearch if no loaded sketches (#437)

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• MRG: switch to more efficient use of Collection by removing cloning (#438)

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• MRG: add tests for RocksDB/RevIndex, standalone manifests, and flexible pathlists (#436)

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• reenable and fix test_fastgather.py::test_indexed_against

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• impl Deref for MultiCollection

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• debugging multisigfile test

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• clippy

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• switch to using load_sketches method

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• deref doesn't actually make sense for MultiCollection

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Commits on Aug 27, 2024

• update to latest sourmash code

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• update to latest sourmash code

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• simplify

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• update to latest sourmash code

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• Merge branch 'main' of github.com:sourmash-bio/sourmash_plugin_branchwater into ctb_misc2

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• remove unnecessary flag

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Commits on Sep 8, 2024

• Merge branch 'main' of github.com:sourmash-bio/sourmash_plugin_branchwater into ctb_misc2

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Commits on Sep 9, 2024

• MRG: support & test loading of standalone manifests within pathlists (#450)

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• MRG: documentation updates based on new collection loading (#444)

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• Merge branch 'main' of github.com:sourmash-bio/sourmash_plugin_branchwater into ctb_misc2

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Commits on Sep 10, 2024

• Merge branch 'main' of github.com:sourmash-bio/sourmash_plugin_branchwater into ctb_misc2

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• Update src/lib.rs

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• switch unwrap to expect

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• Merge branch 'ctb_misc2' of github.com:sourmash-bio/sourmash_plugin_branchwater into ctb_misc2

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• move unwrap to expect

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• minor cleanup

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Commits on Sep 11, 2024

• cargo fmt

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Commits on Sep 15, 2024

• provide legacy method to avoid xfail on index loading

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• switch to using reference

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• update docs to reflect pathlist behavior

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• test recursive nature of MultiCollection

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• re-enable test that is now passing

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Commits on Sep 16, 2024

• update to latest sourmash

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• upd sourmash

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• Merge branch 'ctb_misc2' into fix_multisig_foo

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• Merge branch 'main' of github.com:sourmash-bio/sourmash_plugin_branchwater into ctb_misc2

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• Merge branch 'ctb_misc2' into fix_multisig_foo

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• upd sourmash

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• more better debug

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Commits on Sep 17, 2024

• update sourmash

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• Merge branch 'ctb_misc2' into fix_multisig_foo

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• switch to exp branch of sourmash

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• narrow debugging

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• add some debugging code

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• upd

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Commits on Sep 18, 2024

• mut MultiCollection

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• cleanup

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Commits on Sep 21, 2024

• update after merge of sourmash-bio/sourmash#3305

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Commits on Sep 22, 2024

• fix contains_revindex

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• add trace commands for tracing loading

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Commits on Sep 24, 2024

• Merge branch 'ctb_misc2' into fix_multisig_foo

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• update to latest sourmash branch

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Commits on Oct 27, 2024

• Merge branch 'main' of github.com:sourmash-bio/sourmash_plugin_branchwater into fix_multisig_foo

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• upd

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• let test continue to fail

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