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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
# This file is automatically @generated by Cargo.
# It is not intended for manual editing.
version = 4
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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dependencies = [
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Simplify user authentication flow
2026-04-29 08:45:49 +02:00
[[package]]
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dependencies = [
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"getrandom 0.3.4",
"once_cell",
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
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dependencies = [
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feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
[[package]]
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checksum = "dc890384c8602f339876ded803c97ad529f3842aba97f6392b3dba0dd171769b"
dependencies = [
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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dependencies = [
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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dependencies = [
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
"windows-link",
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
version = "0.23.1"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
checksum = "ac07cdecf99051d9a5238b80f35af32cdeba5b336e55d957b318b50137e18da5"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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dependencies = [
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
[[package]]
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dependencies = [
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
[[package]]
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "bitvec"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
version = "1.1.1"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
checksum = "ddcec3d12c579d40898fe0a9a358a803c23e9c52ca3c425707f81c9436211837"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
dependencies = [
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"wyz",
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
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dependencies = [
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
[[package]]
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version = "0.12.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
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dependencies = [
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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dependencies = [
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"nanorand",
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "bpaf"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
version = "0.9.27"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
checksum = "c670d65eea33846872d5ccf668c00a94c5c67dbdcc0289ea1c362671ce1ddb82"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "bytes"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
version = "1.12.1"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
dependencies = [
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"libbz2-rs-sys",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
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refactor: rename batch retrieval methods and update common_traits
2026-08-20 05:31:22 +02:00
"common_traits 0.11.4",
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
"epserde",
feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
"mem_dbg",
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
dependencies = [
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"web-time",
📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
dependencies = [
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[[package]]
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
dependencies = [
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[[package]]
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
dependencies = [
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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dependencies = [
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"windows-sys 0.61.2",
feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
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refactor: rename batch retrieval methods and update common_traits
2026-08-20 05:31:22 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
[[package]]
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feat: introduce genome metadata tracking and CSV export
2026-05-22 09:28:58 +02:00
[[package]]
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
[[package]]
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
"syn 2.0.117",
feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
"unicode-xid",
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
"block-buffer 0.10.4",
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"bitflags 2.11.1",
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
[[package]]
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Add CLI progress bars and throughput metrics to partitioning
2026-05-19 12:18:12 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
"syn 2.0.117",
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
[[package]]
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refactor: rename batch retrieval methods and update common_traits
2026-08-20 05:31:22 +02:00
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refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
"epserde-derive",
feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
"maligned",
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
"syn 2.0.117",
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
[[package]]
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
"syn 2.0.117",
feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"windows-sys 0.61.2",
+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
[[package]]
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
[[package]]
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
checksum = "77ce24cb58228fbb8aa041425bb1050850ac19177686ea6e0f41a70416f56fdb"
feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
[[package]]
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"r-efi 5.3.0",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
[[package]]
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Simplify user authentication flow
2026-04-29 08:45:49 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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Refactor: Simplify user authentication flow
2026-04-29 08:45:49 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
dependencies = [
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"rayon",
+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
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refactor: rename batch retrieval methods and update common_traits
2026-08-20 05:31:22 +02:00
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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refactor: rename batch retrieval methods and update common_traits
2026-08-20 05:31:22 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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refactor: rename batch retrieval methods and update common_traits
2026-08-20 05:31:22 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"hashbrown",
Add CLI progress bars and throughput metrics to partitioning
2026-05-19 12:18:12 +02:00
]
feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
[[package]]
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
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📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
[[package]]
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
[[package]]
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
[[package]]
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feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
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feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
(feat) Add entropy-based filtering and rolling statistics for k-mers
2026-04-20 15:34:56 +02:00
[[package]]
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
dependencies = [
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[[package]]
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
dependencies = [
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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dependencies = [
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
[[package]]
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
dependencies = [
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"hashbrown",
+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "d640282b302c0bb0a2a8e0233ead9035e3bed871f0b7e81fe4a1ec829765db44"
dependencies = [
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
[[package]]
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version = "0.2.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
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dependencies = [
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feat: add parallel distance matrix computation for bit and int matrices
2026-05-15 17:18:02 +08:00
[[package]]
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
"maligned",
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
"mem_dbg-derive",
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
dependencies = [
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "86968d85441db75203c34deefd0c88032f275aaa85cee19a1dcfff6ae9df56da"
dependencies = [
"bitflags 1.3.2",
"combine",
"libc",
"mach2",
Refactor indexing pipeline and partition path resolution
2026-08-20 19:14:39 +02:00
"nix",
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
"sysctl",
"thiserror 1.0.69",
"widestring",
"windows 0.48.0",
]
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
name = "multimap"
version = "0.10.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "1d87ecb2933e8aeadb3e3a02b828fed80a7528047e68b4f424523a0981a3a084"
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
name = "nanorand"
version = "0.6.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "729eb334247daa1803e0a094d0a5c55711b85571179f5ec6e53eccfdf7008958"
feat: add parallel distance matrix computation for bit and int matrices
2026-05-15 17:18:02 +08:00
[[package]]
name = "ndarray"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
version = "0.17.2"
feat: add parallel distance matrix computation for bit and int matrices
2026-05-15 17:18:02 +08:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
checksum = "520080814a7a6b4a6e9070823bb24b4531daac8c4627e08ba5de8c5ef2f2752d"
feat: add parallel distance matrix computation for bit and int matrices
2026-05-15 17:18:02 +08:00
dependencies = [
"matrixmultiply",
"num-complex",
"num-integer",
"num-traits",
"portable-atomic",
"portable-atomic-util",
"rawpointer",
]
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "niffler"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
version = "3.0.1"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
checksum = "01baa3696744e580712b28344fe25ed4ac1e8c4b76cc5189a34e713924c25208"
+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
dependencies = [
"bgzip",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"bzip2",
+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
"cfg-if",
"flate2",
"liblzma",
"thiserror 2.0.18",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
"zstd",
]
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
name = "nix"
version = "0.26.4"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "598beaf3cc6fdd9a5dfb1630c2800c7acd31df7aaf0f565796fba2b53ca1af1b"
dependencies = [
"bitflags 1.3.2",
"cfg-if",
"libc",
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
"memoffset",
"pin-utils",
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
]
[[package]]
name = "ntapi"
version = "0.4.3"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "c3b335231dfd352ffb0f8017f3b6027a4917f7df785ea2143d8af2adc66980ae"
dependencies = [
"winapi",
]
📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
[[package]]
name = "nu-ansi-term"
version = "0.50.3"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "7957b9740744892f114936ab4a57b3f487491bbeafaf8083688b16841a4240e5"
dependencies = [
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"windows-sys 0.61.2",
📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
]
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
name = "num-complex"
version = "0.4.6"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "73f88a1307638156682bada9d7604135552957b7818057dcef22705b4d509495"
dependencies = [
"num-traits",
]
feat: add parallel distance matrix computation for bit and int matrices
2026-05-15 17:18:02 +08:00
[[package]]
name = "num-integer"
version = "0.1.46"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "7969661fd2958a5cb096e56c8e1ad0444ac2bbcd0061bd28660485a44879858f"
dependencies = [
"num-traits",
]
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "num-traits"
version = "0.2.19"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "071dfc062690e90b734c0b2273ce72ad0ffa95f0c74596bc250dcfd960262841"
dependencies = [
"autocfg",
]
Add persistent compact integer vector and cache-line-optimized MPHF
2026-05-13 06:24:43 +08:00
[[package]]
name = "obicompactvec"
version = "0.1.0"
dependencies = [
refactor: rename batch retrieval methods and update common_traits
2026-08-20 05:31:22 +02:00
"common_traits 0.13.0",
Add persistent compact integer vector and cache-line-optimized MPHF
2026-05-13 06:24:43 +08:00
"memmap2",
feat: add parallel distance matrix computation for bit and int matrices
2026-05-15 17:18:02 +08:00
"ndarray",
"rayon",
Add persistent compact integer vector and cache-line-optimized MPHF
2026-05-13 06:24:43 +08:00
"tempfile",
]
Refactor: Simplify user authentication flow
2026-04-29 08:45:49 +02:00
[[package]]
name = "obidebruinj"
version = "0.1.0"
dependencies = [
"ahash",
refactor: replace mutex with channels for parallel debruijn processing
2026-06-13 10:34:31 +02:00
"crossbeam-channel",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"hashbrown",
Refactor: Simplify user authentication flow
2026-04-29 08:45:49 +02:00
"obifastwrite",
"obikseq",
feat: Add parallel execution and thread-safe graph operations
2026-06-04 22:40:21 +02:00
"rayon",
feat: integrate tracing and enhance bit matrix operations
2026-06-08 19:48:17 +02:00
"tracing",
refactor: centralize k-mer config and introduce packed sequences
2026-05-05 18:08:19 +02:00
"xxhash-rust",
Refactor: Simplify user authentication flow
2026-04-29 08:45:49 +02:00
]
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "obifastwrite"
version = "0.1.0"
dependencies = [
"obikseq",
"xxhash-rust",
]
Introduce obikalgorithm crate to unify pipeline algorithms
2026-08-21 14:10:54 +02:00
[[package]]
name = "obikalgorithm"
version = "0.1.0"
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
[[package]]
name = "obikdump"
version = "0.1.0"
dependencies = [
Implement pack CLI command for matrix packing and layer compaction
2026-08-26 09:08:41 +02:00
"obicompactvec",
Add unitig extraction command to obikdump and obikmer2
2026-08-26 08:26:17 +02:00
"obidebruinj",
"obifastwrite",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikfilter",
refactor: extract partition iteration and unify group selection
2026-08-25 20:00:13 +02:00
"obikidxcache",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikindex",
refactor: extract partition iteration and unify group selection
2026-08-25 20:00:13 +02:00
"obikseq",
Implement pack CLI command for matrix packing and layer compaction
2026-08-26 09:08:41 +02:00
"obisys",
refactor: extract partition iteration and unify group selection
2026-08-25 20:00:13 +02:00
"rayon",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
]
feat: extract k-mer entropy computation into new obikentropy crate
2026-07-08 18:16:08 +02:00
[[package]]
name = "obikentropy"
version = "0.1.0"
dependencies = [
"obikseq",
]
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
[[package]]
name = "obikfilter"
version = "0.1.0"
dependencies = [
"obicompactvec",
Add unified matrix builder abstraction and k-mer filtering CLI
2026-08-26 08:11:32 +02:00
"obidebruinj",
"obikalgorithm",
refactor: extract partition iteration and unify group selection
2026-08-25 20:00:13 +02:00
"obikentropy",
refactor: relocate partition iterator and expose graph builder API
2026-08-26 07:01:55 +02:00
"obikidxcache",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikindex",
Add unified matrix builder abstraction and k-mer filtering CLI
2026-08-26 08:11:32 +02:00
"obikindexer",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikseq",
"obiskio",
Add unified matrix builder abstraction and k-mer filtering CLI
2026-08-26 08:11:32 +02:00
"obisys",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obitaxonomy",
Add unified matrix builder abstraction and k-mer filtering CLI
2026-08-26 08:11:32 +02:00
"tracing",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
]
[[package]]
name = "obikidxcache"
version = "0.1.0"
dependencies = [
"ndarray",
"obicompactvec",
Add directory-level locking and introduce layered index cache
2026-08-22 09:59:26 +02:00
"obikindex",
"obikseq",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"rayon",
"tempfile",
]
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
name = "obikindex"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
version = "0.1.0"
dependencies = [
Consolidate compare_sparse as example and clean up project artifacts
2026-08-19 19:17:14 +02:00
"anyhow",
feat: enable index resumption and enforce directory creation
2026-08-20 21:55:34 +02:00
"bitvec",
refactor: merge KmerPartitions into KmerIndex and rename obikpartition
2026-08-20 13:49:06 +02:00
"cacheline-ef",
"epserde",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"indicatif",
refactor: merge KmerPartitions into KmerIndex and rename obikpartition
2026-08-20 13:49:06 +02:00
"memmap2",
feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
"ndarray",
refactor: merge KmerPartitions into KmerIndex and rename obikpartition
2026-08-20 13:49:06 +02:00
"niffler",
feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
"obicompactvec",
refactor: merge KmerPartitions into KmerIndex and rename obikpartition
2026-08-20 13:49:06 +02:00
"obidebruinj",
"obikentropy",
feat: integrate obikseq to configure global k-mer and minimizer sizes
2026-06-03 11:55:11 +02:00
"obikseq",
refactor: merge KmerPartitions into KmerIndex and rename obikpartition
2026-08-20 13:49:06 +02:00
"obipipeline",
feat: implement per-k-mer sibling counts and central neighbor generation
2026-08-10 14:56:44 +02:00
"obiread",
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
"obiskio",
"obisys",
feat: centralize genome metadata predicates in obikindex
2026-08-13 10:21:54 +02:00
"obitaxonomy",
refactor: merge KmerPartitions into KmerIndex and rename obikpartition
2026-08-20 13:49:06 +02:00
"ptr_hash",
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
"rayon",
"serde",
"serde_json",
feat: implement per-k-mer sibling counts and central neighbor generation
2026-08-10 14:56:44 +02:00
"tempfile",
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
"tracing",
fix: resolve test race conditions, add logging, and fix CI deadlock
2026-08-11 19:35:54 +02:00
"tracing-subscriber",
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
]
refactor: rename obikindex to obikindexer
2026-08-21 05:28:28 +02:00
[[package]]
name = "obikindexer"
version = "0.1.0"
dependencies = [
"cacheline-ef",
"epserde",
"memmap2",
"niffler",
"obicompactvec",
refactor: extract index construction state tracking into extension trait
2026-08-21 09:50:24 +02:00
"obidebruinj",
Introduce obikalgorithm crate to unify pipeline algorithms
2026-08-21 14:10:54 +02:00
"obikalgorithm",
refactor: rename obikindex to obikindexer
2026-08-21 05:28:28 +02:00
"obikindex",
"obikrope",
"obikseq",
"obipipeline",
"obiread",
"obiskbuilder",
"obiskio",
"obisys",
"ptr_hash",
"rayon",
"serde",
"serde_json",
"sysinfo",
"tempfile",
"tracing",
]
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
[[package]]
name = "obikmer"
chore(deps): bump obikmer dependency to 1.2.2
2026-08-19 18:50:24 +02:00
version = "1.2.2"
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
dependencies = [
"clap",
feat: introduce genome metadata tracking and CSV export
2026-05-22 09:28:58 +02:00
"csv",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"indicatif",
feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
"kodama",
feat: add selective k-mer filtering to dump and rebuild commands
2026-06-04 20:54:31 +02:00
"obidebruinj",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
"obifastwrite",
Introduce obikalgorithm crate to unify pipeline algorithms
2026-08-21 14:10:54 +02:00
"obikalgorithm",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikfilter",
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
"obikindex",
refactor: rename obikindex to obikindexer
2026-08-21 05:28:28 +02:00
"obikindexer",
Extract phylogenetic sibling logic into new obikphylo crate
2026-08-14 13:53:05 +02:00
"obikphylo",
Refactor: simplify logic and fix edge case
2026-04-19 21:31:16 +02:00
"obikrope",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
"obikseq",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikstats",
(feat): refactor superkmer to use obipipeline with flat transforms
2026-04-24 18:16:47 +02:00
"obipipeline",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
"obiread",
"obiskbuilder",
refactor: implement RoutableSuperKmer and update k-mer indexing pipeline
2026-04-29 22:52:42 +02:00
"obiskio",
feat(obikmer): add obisys profiling to partition pipeline
2026-05-17 16:01:49 +08:00
"obisys",
feat: introduce obitaxonomy crate for hierarchical taxonomy parsing
2026-06-21 10:37:50 +02:00
"obitaxonomy",
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
"pprof",
refactor: implement RoutableSuperKmer and update k-mer indexing pipeline
2026-04-29 22:52:42 +02:00
"rayon",
feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
"serde",
feat: Implement query subcommand for sequence-to-genome mapping
2026-05-21 13:23:05 +02:00
"serde_json",
feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
"serde_yaml",
feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
"speedytree",
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
"tracing",
"tracing-subscriber",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
]
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
[[package]]
name = "obikmer2"
version = "1.2.2"
dependencies = [
"clap",
feat: add annotate CLI command for applying genome metadata via CSV
2026-08-22 13:39:33 +02:00
"csv",
feat: Add superkmer CLI subcommand to obikmer2
2026-08-22 10:30:15 +02:00
"obifastwrite",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikalgorithm",
Add dump subcommand and introduce reusable group filtering arguments
2026-08-26 08:22:49 +02:00
"obikdump",
Add unified matrix builder abstraction and k-mer filtering CLI
2026-08-26 08:11:32 +02:00
"obikfilter",
refactor: Shift KmerIndex ownership to Arc for thread-safe sharing
2026-08-26 19:26:29 +02:00
"obikidxcache",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikindex",
"obikindexer",
Start of a huge refactoring
2026-08-22 12:34:05 +02:00
"obikmerge",
refactor: Shift KmerIndex ownership to Arc for thread-safe sharing
2026-08-26 19:26:29 +02:00
"obikquery",
Implement pack CLI command for matrix packing and layer compaction
2026-08-26 09:08:41 +02:00
"obikrebuild",
refactor: Shift KmerIndex ownership to Arc for thread-safe sharing
2026-08-26 19:26:29 +02:00
"obikrope",
Add obikselect crate for k-mer selection and aggregation
2026-08-26 08:20:58 +02:00
"obikselect",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikseq",
refactor: Shift KmerIndex ownership to Arc for thread-safe sharing
2026-08-26 19:26:29 +02:00
"obikstats",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obipipeline",
"obiread",
feat: Add superkmer CLI subcommand to obikmer2
2026-08-22 10:30:15 +02:00
"obiskbuilder",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obisys",
"tracing",
"tracing-subscriber",
]
[[package]]
name = "obikmerge"
version = "0.1.0"
dependencies = [
"obicompactvec",
Start of a huge refactoring
2026-08-22 12:34:05 +02:00
"obikalgorithm",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikindex",
"obikindexer",
"obikseq",
"obipipeline",
"obiskio",
"obisys",
Start of a huge refactoring
2026-08-22 12:34:05 +02:00
"rayon",
"tempfile",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"tracing",
]
Extract phylogenetic sibling logic into new obikphylo crate
2026-08-14 13:53:05 +02:00
[[package]]
name = "obikphylo"
version = "0.1.0"
dependencies = [
Move sibling annex implementation to obikphylo siblings module
2026-08-14 20:27:35 +02:00
"memmap2",
Extract phylogenetic sibling logic into new obikphylo crate
2026-08-14 13:53:05 +02:00
"ndarray",
"obicompactvec",
Introduce obikalgorithm crate to unify pipeline algorithms
2026-08-21 14:10:54 +02:00
"obikalgorithm",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikidxcache",
Extract phylogenetic sibling logic into new obikphylo crate
2026-08-14 13:53:05 +02:00
"obikindex",
refactor: rename obikindex to obikindexer
2026-08-21 05:28:28 +02:00
"obikindexer",
Extract phylogenetic sibling logic into new obikphylo crate
2026-08-14 13:53:05 +02:00
"obikseq",
"obipipeline",
"obiread",
"obiskbuilder",
"obiskio",
"obisys",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"rand 0.10.2",
Extract phylogenetic sibling logic into new obikphylo crate
2026-08-14 13:53:05 +02:00
"rayon",
"tempfile",
"tracing",
"tracing-subscriber",
]
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
[[package]]
name = "obikquery"
version = "0.1.0"
dependencies = [
refactor: Shift KmerIndex ownership to Arc for thread-safe sharing
2026-08-26 19:26:29 +02:00
"obikidxcache",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikindex",
refactor: Shift KmerIndex ownership to Arc for thread-safe sharing
2026-08-26 19:26:29 +02:00
"obikrope",
"obikseq",
"obiread",
"obiskbuilder",
"serde_json",
"tempfile",
"tracing",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
]
[[package]]
name = "obikrebuild"
version = "0.1.0"
dependencies = [
"obidebruinj",
"obikfilter",
Implement pack CLI command for matrix packing and layer compaction
2026-08-26 09:08:41 +02:00
"obikidxcache",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikindex",
"obikindexer",
"obikseq",
"obisys",
"tracing",
]
♻️ refactor rope implementation to use obikrope
2026-04-19 21:22:10 +02:00
[[package]]
name = "obikrope"
version = "0.1.0"
dependencies = [
"bytes",
"criterion2",
]
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
[[package]]
name = "obikselect"
version = "0.1.0"
dependencies = [
"obicompactvec",
refactor(obikselect): implement Algorithm trait for selection
2026-08-22 17:16:30 +02:00
"obikalgorithm",
Add obikselect crate for k-mer selection and aggregation
2026-08-26 08:20:58 +02:00
"obikfilter",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikindex",
"obisys",
"tracing",
]
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "obikseq"
version = "0.1.0"
dependencies = [
"bitvec",
"criterion2",
refactor: implement RoutableSuperKmer and update k-mer indexing pipeline
2026-04-29 22:52:42 +02:00
"serde",
"serde_json",
♻️ refactor(obikpartitionner): replace low-level I/O with obiskio::SKFileWriter
2026-04-26 14:58:41 +02:00
"xxhash-rust",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
]
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
[[package]]
name = "obikstats"
version = "0.1.0"
dependencies = [
"obicompactvec",
feat: add col_weights API and refactor obikstats to use Algorithm trait
2026-08-22 13:56:50 +02:00
"obikalgorithm",
"obikidxcache",
Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
"obikindex",
"rayon",
]
🔖 Add obipipeline parallel pipeline library
2026-04-24 08:52:46 +02:00
[[package]]
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version = "0.1.0"
dependencies = [
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "obiread"
version = "0.1.0"
dependencies = [
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"bzip2",
📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
"infer",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"liblzma",
"niffler",
♻️ refactor rope implementation to use obikrope
2026-04-19 21:22:10 +02:00
"obikrope",
(deps) Add regex crate and improve MIME type detection
2026-04-24 17:14:33 +02:00
"regex",
📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
"tracing",
"tracing-subscriber",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"ureq",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
]
[[package]]
name = "obiskbuilder"
version = "0.1.0"
dependencies = [
feat: extract k-mer entropy computation into new obikentropy crate
2026-07-08 18:16:08 +02:00
"criterion2",
(feat) Add entropy-based filtering and rolling statistics for k-mers
2026-04-20 15:34:56 +02:00
"lazy_static",
feat: extract k-mer entropy computation into new obikentropy crate
2026-07-08 18:16:08 +02:00
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♻️ refactor rope implementation to use obikrope
2026-04-19 21:22:10 +02:00
"obikrope",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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feat: add streaming sequence reader and superkmer iterator
2026-05-27 00:09:12 +02:00
"obiread",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
]
+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
[[package]]
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dependencies = [
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feat: implement persistent layered index and chunked binary format
2026-05-09 17:20:08 +08:00
"memmap2",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"niffler",
+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"rustix",
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
"serde",
"serde_json",
+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
"tempfile",
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refactor: restructure k-mer partitioning pipeline for memory efficiency
2026-05-17 15:34:44 +08:00
[[package]]
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Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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refactor: restructure k-mer partitioning pipeline for memory efficiency
2026-05-17 15:34:44 +08:00
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Extract index modules into specialized workspace subcrates
2026-08-21 21:23:12 +02:00
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perf: enable zero-allocation queries and memory-mapped indexes
2026-06-03 09:39:49 +02:00
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feat: integrate tracing and enhance bit matrix operations
2026-06-08 19:48:17 +02:00
"tracing",
refactor: restructure k-mer partitioning pipeline for memory efficiency
2026-05-17 15:34:44 +08:00
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feat: add benchmark pipeline, expose APIs, and enforce strict paths
2026-06-19 09:55:41 +02:00
[[package]]
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
name = "pprof"
feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
"aligned-vec",
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
"backtrace",
"cfg-if",
"findshlibs",
"libc",
"log",
Refactor indexing pipeline and partition path resolution
2026-08-20 19:14:39 +02:00
"nix",
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
"once_cell",
"prost",
"prost-build",
"prost-derive",
"sha2",
"smallvec",
feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
"spin",
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
"symbolic-demangle",
"tempfile",
feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
"thiserror 2.0.18",
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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refactor: rename batch retrieval methods and update common_traits
2026-08-20 05:31:22 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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refactor: rename batch retrieval methods and update common_traits
2026-08-20 05:31:22 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
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refactor: rename batch retrieval methods and update common_traits
2026-08-20 05:31:22 +02:00
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refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
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feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
"rand_chacha 0.9.0",
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
[[package]]
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
[[package]]
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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[[package]]
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dependencies = [
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
"rand_core 0.9.5",
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[[package]]
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checksum = "ec0be4795e2f6a28069bec0b5ff3e2ac9bafc99e6a9a7dc3547996c5c816922c"
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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[[package]]
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
[[package]]
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feat: add parallel distance matrix computation for bit and int matrices
2026-05-15 17:18:02 +08:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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dependencies = [
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[[package]]
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dependencies = [
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
[[package]]
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
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dependencies = [
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
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(deps) Add regex crate and improve MIME type detection
2026-04-24 17:14:33 +02:00
[[package]]
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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(deps) Add regex crate and improve MIME type detection
2026-04-24 17:14:33 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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(deps) Add regex crate and improve MIME type detection
2026-04-24 17:14:33 +02:00
dependencies = [
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
[[package]]
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
dependencies = [
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[[package]]
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "a4689e6c2294d81e88dc6261c768b63bc4fcdb852be6d1352498b114f61383b7"
dependencies = [
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
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checksum = "b50b8869d9fc858ce7266cce0194bd74df58b9d0e3f6df3a9fc8eb470d95c09d"
feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
[[package]]
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
[[package]]
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dependencies = [
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
[[package]]
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dependencies = [
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
"bitflags 2.11.1",
+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
"errno",
"libc",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"linux-raw-sys",
"windows-sys 0.61.2",
+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "69f9466fb2c14ea04357e91413efb882e2a6d4a406e625449bc0a5d360d53a21"
dependencies = [
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"once_cell",
"ring",
"rustls-pki-types",
"rustls-webpki",
"subtle",
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[[package]]
name = "rustls-pki-types"
version = "1.14.0"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "be040f8b0a225e40375822a563fa9524378b9d63112f53e19ffff34df5d33fdd"
dependencies = [
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[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "8279bb85272c9f10811ae6a6c547ff594d6a7f3c6c6b02ee9726d1d0dcfcdd06"
dependencies = [
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📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
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feat: introduce genome metadata tracking and CSV export
2026-05-22 09:28:58 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "9774ba4a74de5f7b1c1451ed6cd5285a32eddb5cccb8cc655a4e50009e06477f"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
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dependencies = [
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
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dependencies = [
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
"syn 2.0.117",
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
[[package]]
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version = "1.0.28"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "8a7852d02fc848982e0c167ef163aaff9cd91dc640ba85e263cb1ce46fae51cd"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
version = "1.0.229"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
checksum = "4148590afebada386688f18773da617792bf2ef03ffc1e4cbd2b1d45b023e0ba"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
dependencies = [
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[[package]]
name = "serde_core"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
checksum = "67dca2c9c51e58a4791a4b1ed58308b39c64224d349a935ab5039aa360942a48"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
dependencies = [
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[[package]]
name = "serde_derive"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
version = "1.0.229"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
checksum = "e7a5d71263a5a7d47b41f6b3f06ba276f10cc18b0931f1799f710578e2309348"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
dependencies = [
"proc-macro2",
"quote",
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
"syn 3.0.3",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
]
[[package]]
name = "serde_json"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
version = "1.0.151"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
checksum = "c841b55ecdae098c80dcae9cf767f6f8a0c2cdb3416bbef72181df4d0fe73f14"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
dependencies = [
"itoa",
"memchr",
"serde",
"serde_core",
"zmij",
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feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
[[package]]
name = "serde_yaml"
version = "0.9.34+deprecated"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "6a8b1a1a2ebf674015cc02edccce75287f1a0130d394307b36743c2f5d504b47"
dependencies = [
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
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checksum = "a7507d819769d01a365ab707794a4084392c824f54a7a6a7862f8c3d0892b283"
dependencies = [
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
"cpufeatures 0.2.17",
"digest 0.10.7",
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[[package]]
name = "sha3"
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checksum = "be176f1a57ce4e3d31c1a166222d9768de5954f811601fb7ca06fc8203905ce1"
dependencies = [
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
[[package]]
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dependencies = [
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
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feat: add pairwise distance computation and phylogenetic trees
2026-05-21 11:47:35 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
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dependencies = [
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"clap",
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"rand 0.8.6",
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feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
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dependencies = [
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
[[package]]
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dependencies = [
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dependencies = [
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
"syn 2.0.117",
feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
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checksum = "13c2bddecc57b384dee18652358fb23172facb8a2c51ccc10d74c157bdea3292"
feat: add kmer iterators and optimize layered map performance
2026-05-12 22:28:01 +08:00
[[package]]
name = "sucds"
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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2026-04-24 21:07:58 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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+ obiskio: add binary I/O with LRU pool and compression
2026-04-24 21:07:58 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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Add CLI progress bars and throughput metrics to partitioning
2026-05-19 12:18:12 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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feat: add Sankoff parsimony model and directory locking
2026-08-12 15:27:39 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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2026-04-23 21:03:48 +02:00
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📦 Add obipipeline crate and refactor path handling
2026-04-20 20:02:58 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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2026-04-16 22:38:20 +02:00
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📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
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chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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📦 Add infer and new pipeline infrastructure
2026-04-23 21:03:48 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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Add CLI progress bars and throughput metrics to partitioning
2026-05-19 12:18:12 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
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checksum = "712e227841d057c1ee1cd2fb22fa7e5a5461ae8e48fa2ca79ec42cfc1931183f"
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "e686886bc078bc1b0b600cac0147aadb815089b6e4da64016cbd754b6342700f"
dependencies = [
"windows-targets 0.48.5",
]
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
name = "windows"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
version = "0.62.2"
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
checksum = "527fadee13e0c05939a6a05d5bd6eec6cd2e3dbd648b9f8e447c6518133d8580"
dependencies = [
"windows-collections",
"windows-core",
"windows-future",
"windows-numerics",
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
dependencies = [
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
"windows-core",
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
]
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
name = "windows-core"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
version = "0.62.2"
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
checksum = "b8e83a14d34d0623b51dce9581199302a221863196a1dde71a7663a4c2be9deb"
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
dependencies = [
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
"windows-implement",
"windows-interface",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"windows-link",
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
"windows-result",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"windows-strings",
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dependencies = [
"windows-core",
"windows-link",
"windows-threading",
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
]
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
name = "windows-implement"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
version = "0.60.2"
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
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Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
dependencies = [
"proc-macro2",
"quote",
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
"syn 2.0.117",
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
]
[[package]]
name = "windows-interface"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
version = "0.59.3"
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
checksum = "3f316c4a2570ba26bbec722032c4099d8c8bc095efccdc15688708623367e358"
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
dependencies = [
"proc-macro2",
"quote",
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
"syn 2.0.117",
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
]
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "windows-link"
version = "0.2.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "f0805222e57f7521d6a62e36fa9163bc891acd422f971defe97d64e70d0a4fe5"
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
[[package]]
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
name = "windows-numerics"
version = "0.3.1"
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
checksum = "6e2e40844ac143cdb44aead537bbf727de9b044e107a0f1220392177d15b0f26"
Refactor: Simplify user authentication flow
2026-04-27 20:17:06 +02:00
dependencies = [
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"windows-core",
"windows-link",
]
[[package]]
name = "windows-result"
version = "0.4.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "7781fa89eaf60850ac3d2da7af8e5242a5ea78d1a11c49bf2910bb5a73853eb5"
dependencies = [
"windows-link",
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[[package]]
name = "windows-strings"
version = "0.5.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "7837d08f69c77cf6b07689544538e017c1bfcf57e34b4c0ff58e6c2cd3b37091"
dependencies = [
"windows-link",
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
]
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "windows-sys"
version = "0.52.0"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "282be5f36a8ce781fad8c8ae18fa3f9beff57ec1b52cb3de0789201425d9a33d"
dependencies = [
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
"windows-targets 0.52.6",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
]
[[package]]
name = "windows-sys"
version = "0.61.2"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "ae137229bcbd6cdf0f7b80a31df61766145077ddf49416a728b02cb3921ff3fc"
dependencies = [
refactor: extract obikindex crate and remove deprecated CLI commands
2026-05-20 18:21:05 +02:00
"windows-link",
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
]
[[package]]
name = "windows-targets"
version = "0.48.5"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "9a2fa6e2155d7247be68c096456083145c183cbbbc2764150dda45a87197940c"
dependencies = [
"windows_aarch64_gnullvm 0.48.5",
"windows_aarch64_msvc 0.48.5",
"windows_i686_gnu 0.48.5",
"windows_i686_msvc 0.48.5",
"windows_x86_64_gnu 0.48.5",
"windows_x86_64_gnullvm 0.48.5",
"windows_x86_64_msvc 0.48.5",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
]
[[package]]
name = "windows-targets"
version = "0.52.6"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "9b724f72796e036ab90c1021d4780d4d3d648aca59e491e6b98e725b84e99973"
dependencies = [
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
"windows_aarch64_gnullvm 0.52.6",
"windows_aarch64_msvc 0.52.6",
"windows_i686_gnu 0.52.6",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
"windows_i686_gnullvm",
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
"windows_i686_msvc 0.52.6",
"windows_x86_64_gnu 0.52.6",
"windows_x86_64_gnullvm 0.52.6",
"windows_x86_64_msvc 0.52.6",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
]
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
[[package]]
name = "windows-threading"
version = "0.2.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "3949bd5b99cafdf1c7ca86b43ca564028dfe27d66958f2470940f73d86d75b37"
dependencies = [
"windows-link",
]
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
name = "windows_aarch64_gnullvm"
version = "0.48.5"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "2b38e32f0abccf9987a4e3079dfb67dcd799fb61361e53e2882c3cbaf0d905d8"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "windows_aarch64_gnullvm"
version = "0.52.6"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "32a4622180e7a0ec044bb555404c800bc9fd9ec262ec147edd5989ccd0c02cd3"
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
name = "windows_aarch64_msvc"
version = "0.48.5"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "dc35310971f3b2dbbf3f0690a219f40e2d9afcf64f9ab7cc1be722937c26b4bc"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "windows_aarch64_msvc"
version = "0.52.6"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "09ec2a7bb152e2252b53fa7803150007879548bc709c039df7627cabbd05d469"
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
name = "windows_i686_gnu"
version = "0.48.5"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "a75915e7def60c94dcef72200b9a8e58e5091744960da64ec734a6c6e9b3743e"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "windows_i686_gnu"
version = "0.52.6"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "8e9b5ad5ab802e97eb8e295ac6720e509ee4c243f69d781394014ebfe8bbfa0b"
[[package]]
name = "windows_i686_gnullvm"
version = "0.52.6"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "0eee52d38c090b3caa76c563b86c3a4bd71ef1a819287c19d586d7334ae8ed66"
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
name = "windows_i686_msvc"
version = "0.48.5"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "8f55c233f70c4b27f66c523580f78f1004e8b5a8b659e05a4eb49d4166cca406"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "windows_i686_msvc"
version = "0.52.6"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "240948bc05c5e7c6dabba28bf89d89ffce3e303022809e73deaefe4f6ec56c66"
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
name = "windows_x86_64_gnu"
version = "0.48.5"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "53d40abd2583d23e4718fddf1ebec84dbff8381c07cae67ff7768bbf19c6718e"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "windows_x86_64_gnu"
version = "0.52.6"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "147a5c80aabfbf0c7d901cb5895d1de30ef2907eb21fbbab29ca94c5b08b1a78"
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
name = "windows_x86_64_gnullvm"
version = "0.48.5"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "0b7b52767868a23d5bab768e390dc5f5c55825b6d30b86c844ff2dc7414044cc"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "windows_x86_64_gnullvm"
version = "0.52.6"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "24d5b23dc417412679681396f2b49f3de8c1473deb516bd34410872eff51ed0d"
Refactor: Extract utility function for string reversal
2026-04-27 20:23:44 +02:00
[[package]]
name = "windows_x86_64_msvc"
version = "0.48.5"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "ed94fce61571a4006852b7389a063ab983c02eb1bb37b47f8272ce92d06d9538"
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "windows_x86_64_msvc"
version = "0.52.6"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "589f6da84c646204747d1270a2a5661ea66ed1cced2631d546fdfb155959f9ec"
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checksum = "05f360fc0b24296329c78fda852a1e9ae82de9cf7b27dae4b7f62f118f77b9ed"
dependencies = [
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feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
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dependencies = [
"libc",
chore: update dependencies and adapt to updated crate APIs
2026-08-19 20:18:46 +02:00
"rustix",
feat: implement NUMA-aware worker pools for merge command
2026-06-14 23:40:09 +02:00
]
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
[[package]]
name = "xxhash-rust"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
source = "registry+https://github.com/rust-lang/crates.io-index"
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
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first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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dependencies = [
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dependencies = [
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"quote",
chore(deps): update dependencies and clean up imports
2026-08-19 19:47:40 +02:00
"syn 2.0.117",
first implementation but far to be optimal
2026-04-16 22:38:20 +02:00
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dependencies = [
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