htslib 1.18 -> 1.19 https://repology.org/project/htslib/versions
attrpath: htslib
Checking auto update branch...
No auto update branch exists
[version] 
[version] updated version and sha256
[rustCrateVersion] 
[rustCrateVersion] No cargoSha256 or cargoHash found
[golangModuleVersion] 
[golangModuleVersion] Not a buildGoModule package with vendorSha256 or vendorHash
[npmDepsVersion] 
[npmDepsVersion] No npmDepsHash
[updateScript] 
[updateScript] skipping because derivation has no updateScript
Diff after rewrites:
diff --git a/pkgs/development/libraries/science/biology/htslib/default.nix b/pkgs/development/libraries/science/biology/htslib/default.nix
index bf9233d3050e..d89b6dbbe679 100644
--- a/pkgs/development/libraries/science/biology/htslib/default.nix
+++ b/pkgs/development/libraries/science/biology/htslib/default.nix
@@ -2,11 +2,11 @@
 
 stdenv.mkDerivation rec {
   pname = "htslib";
-  version = "1.18";
+  version = "1.19";
 
   src = fetchurl {
     url = "https://github.com/samtools/htslib/releases/download/${version}/${pname}-${version}.tar.bz2";
-    sha256 = "sha256-8atTpZOiMgob+t9O+RXa54QAbFtckiyKgXTXUwqa8Y8=";
+    sha256 = "sha256-h1HEDE+n0fI6aGTFsgpzdE+L5oI5U1rncpxffTlNBzY=";
   };
 
   # perl is only used during the check phase.

Successfully finished processing
cachix "/nix/store/pzww9wqwy5iw90fs1fcx9nv8gdiwv8wr-htslib-1.19"
[check][nixpkgs-review]
Result of `nixpkgs-review` run on x86_64-linux [1](https://github.com/Mic92/nixpkgs-review)
<details>
  <summary>2 packages failed to build:</summary>
  <ul>
    <li>python310Packages.cnvkit</li>
    <li>python311Packages.cnvkit</li>
  </ul>
</details>
<details>
  <summary>18 packages built:</summary>
  <ul>
    <li>angsd</li>
    <li>bcftools</li>
    <li>deeptools</li>
    <li>delly</li>
    <li>htslib</li>
    <li>mosdepth</li>
    <li>octopus-caller</li>
    <li>perl536Packages.BioDBHTS</li>
    <li>perl538Packages.BioDBHTS</li>
    <li>python310Packages.htseq</li>
    <li>python310Packages.pysam</li>
    <li>python310Packages.pywfa</li>
    <li>python311Packages.htseq</li>
    <li>python311Packages.pysam</li>
    <li>python311Packages.pywfa</li>
    <li>samtools</li>
    <li>tebreak</li>
    <li>truvari</li>
  </ul>
</details>

Automatic update generated by [nixpkgs-update](https://github.com/ryantm/nixpkgs-update) tools. This update was made based on information from https://repology.org/project/htslib/versions.


meta.description for htslib is: A C library for reading/writing high-throughput sequencing data

meta.homepage for htslib is: http://www.htslib.org/




###### Updates performed
- Version update

###### To inspect upstream changes

- [Release on GitHub](https://github.com/samtools/htslib/releases/tag/1.19)

- [Compare changes on GitHub](https://github.com/samtools/htslib/compare/1.18...1.19)

###### Impact

<b>Checks done</b>

---

- built on NixOS
- The tests defined in `passthru.tests`, if any, passed
- found 1.19 with grep in /nix/store/pzww9wqwy5iw90fs1fcx9nv8gdiwv8wr-htslib-1.19
- found 1.19 in filename of file in /nix/store/pzww9wqwy5iw90fs1fcx9nv8gdiwv8wr-htslib-1.19

---

<details>
<summary>
<b>Rebuild report</b> (if merged into master) (click to expand)
</summary>

```
21 total rebuild path(s)

21 package rebuild(s)

First fifty rebuilds by attrpath
angsd
bcftools
deeptools
delly
htslib
mosdepth
octopus-caller
perl536Packages.BioDBHTS
perl538Packages.BioDBHTS
platypus
python310Packages.cnvkit
python310Packages.htseq
python310Packages.pysam
python310Packages.pywfa
python311Packages.cnvkit
python311Packages.htseq
python311Packages.pysam
python311Packages.pywfa
samtools
tebreak
truvari
```

</details>

<details>
<summary>
<b>Instructions to test this update</b> (click to expand)
</summary>

---

Either **download from Cachix**:
```
nix-store -r /nix/store/pzww9wqwy5iw90fs1fcx9nv8gdiwv8wr-htslib-1.19 \
  --option binary-caches 'https://cache.nixos.org/ https://nix-community.cachix.org/' \
  --option trusted-public-keys '
  nix-community.cachix.org-1:mB9FSh9qf2dCimDSUo8Zy7bkq5CX+/rkCWyvRCYg3Fs=
  cache.nixos.org-1:6NCHdD59X431o0gWypbMrAURkbJ16ZPMQFGspcDShjY=
  '
```
(The Cachix cache is only trusted for this store-path realization.)
For the Cachix download to work, your user must be in the `trusted-users` list or you can use `sudo` since root is effectively trusted.

Or, **build yourself**:
```
nix-build -A htslib https://github.com/r-ryantm/nixpkgs/archive/b8e27e666d42eb2d307f84f0aa2e2a7779be1e81.tar.gz
```
Or:
```
nix build github:r-ryantm/nixpkgs/b8e27e666d42eb2d307f84f0aa2e2a7779be1e81#htslib
```

After you've downloaded or built it, look at the files and if there are any, run the binaries:
```
ls -la /nix/store/pzww9wqwy5iw90fs1fcx9nv8gdiwv8wr-htslib-1.19
ls -la /nix/store/pzww9wqwy5iw90fs1fcx9nv8gdiwv8wr-htslib-1.19/bin
```

---

</details>
<br/>



### Pre-merge build results

We have automatically built all packages that will get rebuilt due to
this change.

This gives evidence on whether the upgrade will break dependent packages.
Note sometimes packages show up as _failed to build_ independent of the
change, simply because they are already broken on the target branch.

Result of `nixpkgs-review` run on x86_64-linux [1](https://github.com/Mic92/nixpkgs-review)
<details>
  <summary>2 packages failed to build:</summary>
  <ul>
    <li>python310Packages.cnvkit</li>
    <li>python311Packages.cnvkit</li>
  </ul>
</details>
<details>
  <summary>18 packages built:</summary>
  <ul>
    <li>angsd</li>
    <li>bcftools</li>
    <li>deeptools</li>
    <li>delly</li>
    <li>htslib</li>
    <li>mosdepth</li>
    <li>octopus-caller</li>
    <li>perl536Packages.BioDBHTS</li>
    <li>perl538Packages.BioDBHTS</li>
    <li>python310Packages.htseq</li>
    <li>python310Packages.pysam</li>
    <li>python310Packages.pywfa</li>
    <li>python311Packages.htseq</li>
    <li>python311Packages.pysam</li>
    <li>python311Packages.pywfa</li>
    <li>samtools</li>
    <li>tebreak</li>
    <li>truvari</li>
  </ul>
</details>

---

###### Maintainer pings

cc @mimame for [testing](https://github.com/ryantm/nixpkgs-update/blob/master/doc/nixpkgs-maintainer-faq.md#r-ryantm-opened-a-pr-for-my-package-what-do-i-do).
https://api.github.com/repos/NixOS/nixpkgs/pulls/276900