Merge branch 'latest' of github.com:sourmash-bio/sourmash into propag…

…ate_zip_errors

.pre-commit-config.yaml

@@ -10,7 +10,7 @@ repos:
       - id: check-toml
       - id: debug-statements
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.8.1
+    rev: v0.8.2
     hooks:
       - id: ruff-format
       - id: ruff

doc/databases.md

@@ -30,6 +30,25 @@ The databases do not need to be unpacked or prepared in any way after download.
 
 You can verify that they've been successfully downloaded (and view database properties such as `ksize` and `scaled`) with `sourmash sig summarize <output>`.
 
+## Sketches for human and animal genomes
+
+These sketches are of the latest releases of a number of animal
+genomes. Among other uses, they can be used to detect host
+contamination in microbial metagenomes.
+
+Each file includes sketches at k=21, k=31, and k=51, at a scaled of
+1000, and is about 110 MB.
+
+* Human (hg38) - [hg38.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/hg38.sig.zip)
+* Cow (bosTau9) - [bosTau9.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/bosTau9.sig.zip)
+* Dog (canFam6) - [canFam6.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/canFam6.sig.zip)
+* Horse (equCab3) - [equCab3.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/equCab3.sig.zip)
+* Cat (felCat9) - [felCat9.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/felCat9.sig.zip)
+* Chicken (galGAl6) - [galGal6.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/galGal6.sig.zip)
+* Mouse (mm39) - [mm39.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/mm39.sig.zip)
+* Goat (oviAri4) - [oviAri4.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/oviAri4.sig.zip)
+* Pig (susCr11) - [susScr11.sig.zip](https://farm.cse.ucdavis.edu/~ctbrown/sourmash-db/host/susScr11.sig.zip)
+
 ## GTDB R08-RS214 - DNA databases
 
 [GTDB R08-RS214](https://forum.gtdb.ecogenomic.org/t/announcing-gtdb-r08-rs214/456) consists of 402,709 genomes organized into 85,205 species clusters.

src/core/Cargo.toml

@@ -43,7 +43,7 @@ log = "0.4.22"
 md5 = "0.7.0"
 memmap2 = "0.9.5"
 murmurhash3 = "0.0.5"
-needletail = { version = "0.6.0", default-features = false }
+needletail = { version = "0.6.1", default-features = false }
 niffler = { version = "2.4.0", default-features = false, features = [ "gz" ] }
 nohash-hasher = "0.2.0"
 num-iter = "0.1.45"
@@ -53,11 +53,11 @@ piz = "0.5.0"
 primal-check = "0.3.4"
 rayon = { version = "1.10.0", optional = true }
 rkyv = { version = "0.7.44", optional = true }
-roaring = "0.10.7"
+roaring = "0.10.8"
 roots = "0.0.8"
 serde = { version = "1.0.215", features = ["derive"] }
 serde_json = "1.0.133"
-statrs = "0.17.1"
+statrs = "0.18.0"
 streaming-stats = "0.2.3"
 thiserror = "2.0"
 twox-hash = "1.6.0"