Release fibertools-rs v0.3.7

fiberseq · Jan 10, 2024 · 9cdce73 · 9cdce73
1 parent 1f27489
commit 9cdce73
Showing 1 changed file with 132 additions and 41 deletions.
diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -5,39 +5,19 @@ All notable changes to this project will be documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 and the project tries but probably doesn't to adhere to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
-## 0.3.6 (2024-01-10)
-
-<csr-id-32e9121f47e62e20b38600198f2f3fac3a4c88d6/>
-<csr-id-c7331897aaf9ec5b2a574aa07155675b7dee9a68/>
-<csr-id-09249cbe1d46f4019a1943766b7a7c6ce22d732e/>
-<csr-id-3cf7a30cd115133138bf097b56b81b728756b545/>
-<csr-id-85b6a7180e8aa3f306deed66287ed8abd48c0cff/>
-<csr-id-7b1e93362bce2d88c9af39fbe0e17bb2c71a01ba/>
-<csr-id-76326aa133a1dfd84a14ef987f7275e3f9191476/>
-<csr-id-1e08da2d9a5f5d4e6f8d26f46bc1d95c29f4692d/>
-<csr-id-e6e45a3176369a21c8b7106c97a52644a2d596ce/>
-<csr-id-cd1894501787e76c5590f471b43f7b6b441235ac/>
-<csr-id-d33aed7543af326ca2096b5e675f9a83369741e5/>
-<csr-id-df416375797b65a35055d8746083e522ece2fc57/>
-<csr-id-ff5759efc4a11580d585abe52f4fbe97b44f948e/>
+## 0.3.7 (2024-01-10)
 
 ### Chore
 
- - <csr-id-32e9121f47e62e20b38600198f2f3fac3a4c88d6/> update
-
-### Other
-
- - <csr-id-c7331897aaf9ec5b2a574aa07155675b7dee9a68/> adding code outline for footprinting tool
- - <csr-id-09249cbe1d46f4019a1943766b7a7c6ce22d732e/> cli
- - <csr-id-3cf7a30cd115133138bf097b56b81b728756b545/> clippy
-
-### Bug Fixes
-
- - <csr-id-d50f3388aef6875b2f5a502874eb6d5712e61040/> allow for the unaligned read start and read end
- - <csr-id-51ea0b9661c9887e5e95375ef9af36ec04f1e371/> allow for the unaligned read start and read end
- - <csr-id-3a7134c519bee739b6258025d9e6888331f8494c/> make an iterator for fiberseq records
- - <csr-id-7ba5d14b07251c76071eb09eaa42cdf1df09e2d2/> try and better use threads.
- - <csr-id-43cc3dc7367b725f8e60f9d21c044dc638638f1f/> try and better use threads.
+ - <csr-id-85b6a7180e8aa3f306deed66287ed8abd48c0cff/> add trace to ml mm parser
+ - <csr-id-7b1e93362bce2d88c9af39fbe0e17bb2c71a01ba/> update.
+ - <csr-id-76326aa133a1dfd84a14ef987f7275e3f9191476/> update.
+ - <csr-id-1e08da2d9a5f5d4e6f8d26f46bc1d95c29f4692d/> update.
+ - <csr-id-e6e45a3176369a21c8b7106c97a52644a2d596ce/> update.
+ - <csr-id-cd1894501787e76c5590f471b43f7b6b441235ac/> update.
+ - <csr-id-d33aed7543af326ca2096b5e675f9a83369741e5/> update.
+ - <csr-id-df416375797b65a35055d8746083e522ece2fc57/> update.
+ - <csr-id-ff5759efc4a11580d585abe52f4fbe97b44f948e/> update.
 
 ### New Features
 
@@ -81,23 +61,25 @@ and the project tries but probably doesn't to adhere to [Semantic Versioning](ht
  - <csr-id-c4d0c936f2d812d1f32c9455595f6141ff0b94fd/> add hp tag to center
  - <csr-id-eb5c54eb40d2b0efffa7fff30d607be4bfba9d66/> add hp tag to center
 
-### Chore
+### Bug Fixes
 
- - <csr-id-85b6a7180e8aa3f306deed66287ed8abd48c0cff/> add trace to ml mm parser
- - <csr-id-7b1e93362bce2d88c9af39fbe0e17bb2c71a01ba/> update.
- - <csr-id-76326aa133a1dfd84a14ef987f7275e3f9191476/> update.
- - <csr-id-1e08da2d9a5f5d4e6f8d26f46bc1d95c29f4692d/> update.
- - <csr-id-e6e45a3176369a21c8b7106c97a52644a2d596ce/> update.
- - <csr-id-cd1894501787e76c5590f471b43f7b6b441235ac/> update.
- - <csr-id-d33aed7543af326ca2096b5e675f9a83369741e5/> update.
- - <csr-id-df416375797b65a35055d8746083e522ece2fc57/> update.
- - <csr-id-ff5759efc4a11580d585abe52f4fbe97b44f948e/> update.
+ - <csr-id-d50f3388aef6875b2f5a502874eb6d5712e61040/> allow for the unaligned read start and read end
+ - <csr-id-51ea0b9661c9887e5e95375ef9af36ec04f1e371/> allow for the unaligned read start and read end
+ - <csr-id-3a7134c519bee739b6258025d9e6888331f8494c/> make an iterator for fiberseq records
+ - <csr-id-7ba5d14b07251c76071eb09eaa42cdf1df09e2d2/> try and better use threads.
+ - <csr-id-43cc3dc7367b725f8e60f9d21c044dc638638f1f/> try and better use threads.
+
+### Other
+
+ - <csr-id-c7331897aaf9ec5b2a574aa07155675b7dee9a68/> adding code outline for footprinting tool
+ - <csr-id-09249cbe1d46f4019a1943766b7a7c6ce22d732e/> cli
+ - <csr-id-3cf7a30cd115133138bf097b56b81b728756b545/> clippy
 
 ### Commit Statistics
 
 <csr-read-only-do-not-edit/>
 
- - 70 commits contributed to the release over the course of 81 calendar days.
+ - 72 commits contributed to the release over the course of 81 calendar days.
  - 93 days passed between releases.
  - 56 commits were understood as [conventional](https://www.conventionalcommits.org).
  - 0 issues like '(#ID)' were seen in commit messages
@@ -109,6 +91,8 @@ and the project tries but probably doesn't to adhere to [Semantic Versioning](ht
 <details><summary>view details</summary>
 
  * **Uncategorized**
+    - Clippy ([`1f27489`](https://github.com/fiberseq/fibertools-rs/commit/1f2748914d155e8f55409df9ae9c161c5b3cf562))
+    - Release fibertools-rs v0.3.6 ([`2f4a9ce`](https://github.com/fiberseq/fibertools-rs/commit/2f4a9ce4a5fc0c98fe78803eaad7aca3e5765d72))
     - Clippy ([`ca10f3e`](https://github.com/fiberseq/fibertools-rs/commit/ca10f3eb018e1186f4713e1ce47b2ba777c5ec63))
     - Paths ([`78e9b44`](https://github.com/fiberseq/fibertools-rs/commit/78e9b448b1ede8a14d02649e8e3360eed6521c3c))
     - Release fibertools-rs v0.3.6 ([`cf6891e`](https://github.com/fiberseq/fibertools-rs/commit/cf6891e61aaa2f14b382dc10e48214cb0c4e02ae))
@@ -181,6 +165,113 @@ and the project tries but probably doesn't to adhere to [Semantic Versioning](ht
     - Update. ([`ff5759e`](https://github.com/fiberseq/fibertools-rs/commit/ff5759efc4a11580d585abe52f4fbe97b44f948e))
 </details>
 
+## 0.3.6 (2023-10-09)
+
+<csr-id-32e9121f47e62e20b38600198f2f3fac3a4c88d6/>
+<csr-id-c7331897aaf9ec5b2a574aa07155675b7dee9a68/>
+<csr-id-09249cbe1d46f4019a1943766b7a7c6ce22d732e/>
+<csr-id-3cf7a30cd115133138bf097b56b81b728756b545/>
+<csr-id-85b6a7180e8aa3f306deed66287ed8abd48c0cff/>
+<csr-id-7b1e93362bce2d88c9af39fbe0e17bb2c71a01ba/>
+<csr-id-76326aa133a1dfd84a14ef987f7275e3f9191476/>
+<csr-id-1e08da2d9a5f5d4e6f8d26f46bc1d95c29f4692d/>
+<csr-id-e6e45a3176369a21c8b7106c97a52644a2d596ce/>
+<csr-id-cd1894501787e76c5590f471b43f7b6b441235ac/>
+<csr-id-d33aed7543af326ca2096b5e675f9a83369741e5/>
+<csr-id-df416375797b65a35055d8746083e522ece2fc57/>
+<csr-id-ff5759efc4a11580d585abe52f4fbe97b44f948e/>
+
+### Chore
+
+ - <csr-id-32e9121f47e62e20b38600198f2f3fac3a4c88d6/> update
+
+### Other
+
+ - <csr-id-c7331897aaf9ec5b2a574aa07155675b7dee9a68/> adding code outline for footprinting tool
+ - <csr-id-09249cbe1d46f4019a1943766b7a7c6ce22d732e/> cli
+ - <csr-id-3cf7a30cd115133138bf097b56b81b728756b545/> clippy
+
+### Bug Fixes
+
+ - <csr-id-d50f3388aef6875b2f5a502874eb6d5712e61040/> allow for the unaligned read start and read end
+ - <csr-id-51ea0b9661c9887e5e95375ef9af36ec04f1e371/> allow for the unaligned read start and read end
+ - <csr-id-3a7134c519bee739b6258025d9e6888331f8494c/> make an iterator for fiberseq records
+ - <csr-id-7ba5d14b07251c76071eb09eaa42cdf1df09e2d2/> try and better use threads.
+ - <csr-id-43cc3dc7367b725f8e60f9d21c044dc638638f1f/> try and better use threads.
+
+### New Features
+
+ - <csr-id-7ddcf19be2814d616b3a337fcfe17944f0c5d1c5/> FIRE extract update
+ - <csr-id-bfed25908b7380f535eaac05d53caa1402a3d097/> FIRE extract update
+ - <csr-id-cebf54c21dac19a63e86d251b39b35e9e85ff7cb/> Adding a fire bed+ extract for the fire pipeline.
+ - <csr-id-8db7b4187294429dbc1bb0eac02dcc9eeb14c9a7/> FIRE now works in fibertools! TODO add info to extract, etc.
+ - <csr-id-3edee57927c8c92a883183da4ccfe26b7829f21e/> adding rle information to fire feats
+ - <csr-id-b10a8c40689606c454554d4843322abafa292e91/> adding rle information to fire feats
+ - <csr-id-c4591964da5251b8a93c41c6afa0bd368ffe08a6/> adding rle information to fire feats
+ - <csr-id-3a96904f558f72245fdffe2817a0ca5a7b3afb3e/> adding rle information to fire feats
+ - <csr-id-babb017266dcd3c0b6beb63d8f2da65f7b4c73fc/> adding rle information to fire feats
+ - <csr-id-f830405d775e265790228400ac0c2fe5c2c33661/> adding rle information to fire feats
+ - <csr-id-b954aab4022692cf5f9143bc8bb0cae067296f14/> adding rle information to fire feats
+ - <csr-id-fd11b45c62f633c98872fcd3ca2250963eb75961/> adding rle information to fire feats
+ - <csr-id-7c7c2c3a9f045f96f522ea407035b7d05d2000ae/> adding rle information to fire feats
+ - <csr-id-e1f989722a1979d1fe1a0b3bde4fff1c2971c02d/> adding rle information to fire feats
+ - <csr-id-7fac8c74bd322dce45b36abea71fffda64a70055/> adding rle information to fire feats
+ - <csr-id-be21ec1fa6ab2de4fd89c9df9639c5c71a2d210a/> adding rle information to fire feats
+ - <csr-id-20985ab8029090e9225f367faa5f920b32e085b7/> adding rle information to fire feats
+ - <csr-id-0166d777a815aecd3d3d1e2f4e8d6e43c1172d8d/> adding rle information to fire feats
+ - <csr-id-53ee8b40d44e89bec6f4e4c1fbc6013b326692f7/> adding rle information to fire feats
+ - <csr-id-6ab4844c9e32c9a03337e36aa09f80462643c0cf/> adding rle information to fire feats
+ - <csr-id-e4510e0e8ba22d74845d95531ccb185055447436/> adding rle information to fire feats
+ - <csr-id-ee2732871e072271c9f18cb33458e59feb994da3/> adding rle information to fire feats
+ - <csr-id-efb4372d2b59e82925a0c22d6002cd6e8e404a55/> adding rle information to fire feats
+ - <csr-id-a7b98834cb8fdb0ecf6b832d11e90a0a1f492518/> update fire model
+ - <csr-id-de02c2686f0ad3911123c392133ca680216a837d/> use threads better, fire feats
+ - <csr-id-9ac73b76e0ee791b2f4445cff1f4c07b23ca2adf/> use threads better, fire feats
+ - <csr-id-6d00af8092cb0a77fd59e5b7a7af5fd6356decbd/> use threads better, fire feats
+ - <csr-id-fe239360d09012e96210ac16561a5493f72946e6/> use threads better, fire feats
+ - <csr-id-16714115ebdf1c2ffaf7e0dd5d0a064996c8b186/> start working on decorators
+ - <csr-id-1443446a9b676172735a9d6c29dc3d0e75ce7e81/> start working on decorators
+ - <csr-id-9839e24972cd55c6786545824c5bd2b041e3ca7a/> FIRE io
+ - <csr-id-51149cb14806a6a393b099ab845061f8ea3e7ee0/> Speed up writing FIRE results
+ - <csr-id-bcca38ffdcc05c483387f81facbe2a7d10f064c7/> add a min ML options to add-nucs and keep working on FIRE predictions
+ - <csr-id-1814ee48ed342a73920560a134b2a3bec5fd6c5e/> fire progress indicator.
+ - <csr-id-77f60b934b3f1de1fae4d3de70af9db0d74e5a79/> Add ability to print FIRE features to a text file, TODO predict FIREs in rust.
+ - <csr-id-564cc96d77ce10a40f8793afe6166dc2e397b5b3/> Move prediction into a feature only avalible through Cargo, since bioocnda wont let me do large installs anymore.
+ - <csr-id-68550723237be3674783a86d11b3277ec09339d3/> add simplify options to center
+ - <csr-id-c4d0c936f2d812d1f32c9455595f6141ff0b94fd/> add hp tag to center
+ - <csr-id-eb5c54eb40d2b0efffa7fff30d607be4bfba9d66/> add hp tag to center
+
+### Chore
+
+ - <csr-id-85b6a7180e8aa3f306deed66287ed8abd48c0cff/> add trace to ml mm parser
+ - <csr-id-7b1e93362bce2d88c9af39fbe0e17bb2c71a01ba/> update.
+ - <csr-id-76326aa133a1dfd84a14ef987f7275e3f9191476/> update.
+ - <csr-id-1e08da2d9a5f5d4e6f8d26f46bc1d95c29f4692d/> update.
+ - <csr-id-e6e45a3176369a21c8b7106c97a52644a2d596ce/> update.
+ - <csr-id-cd1894501787e76c5590f471b43f7b6b441235ac/> update.
+ - <csr-id-d33aed7543af326ca2096b5e675f9a83369741e5/> update.
+ - <csr-id-df416375797b65a35055d8746083e522ece2fc57/> update.
+ - <csr-id-ff5759efc4a11580d585abe52f4fbe97b44f948e/> update.
+
+### Commit Statistics
+
+<csr-read-only-do-not-edit/>
+
+ - 2 commits contributed to the release.
+ - 1 commit was understood as [conventional](https://www.conventionalcommits.org).
+ - 0 issues like '(#ID)' were seen in commit messages
+
+### Commit Details
+
+<csr-read-only-do-not-edit/>
+
+<details><summary>view details</summary>
+
+ * **Uncategorized**
+    - Release fibertools-rs v0.3.6 ([`fd321d9`](https://github.com/fiberseq/fibertools-rs/commit/fd321d9a60f64f919061b68701e7c90a6f420140))
+    - Update ([`32e9121`](https://github.com/fiberseq/fibertools-rs/commit/32e9121f47e62e20b38600198f2f3fac3a4c88d6))
+</details>
+
 ## 0.3.5 (2023-10-09)
 
 <csr-id-9b7ceba1f664fe6cdb553b5de43ff856a2cf94c2/>