picard-tools: 2.18.12 -> 2.18.14

[r-ryantm]

Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/picard-tools/versions.

meta.description for picard-tools is: '"Tools for high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF."'.

Checks done (click to expand)

• built on NixOS
• Warning: no invocation of /nix/store/wmiksnhak7y4fkawdpaqnxdinfg2majh-picard-tools-2.18.14/bin/picard had a zero exit code or showed the expected version
• 0 of 1 passed binary check by having a zero exit code.
• 0 of 1 passed binary check by having the new version present in output.
• found 2.18.14 with grep in /nix/store/wmiksnhak7y4fkawdpaqnxdinfg2majh-picard-tools-2.18.14
• directory tree listing: https://gist.github.com/f6ec815bfe86d6b17cddc24efc8e1a74
• du listing: https://gist.github.com/530803baa738179a1d7cc652b6134707

Instructions to test this update (click to expand)

One-time optional setup to skip building using Cachix:

1. Install cachix from https://cachix.org/
2. Use r-ryantm's cache:

   cachix use r-ryantm
   

Test this update by entering a nix shell, seeing what is inside the
result, and if applicable, running some binaries:

nix-shell --pure -I nixpkgs=https://github.com/r-ryantm/nixpkgs/archive/ab86bea57fa60860f7bb3a2e0b93ef9c360d60f7.tar.gz -p picard-tools
ls -la /nix/store/wmiksnhak7y4fkawdpaqnxdinfg2majh-picard-tools-2.18.14

cc @jbedo for testing.

[GrahamcOfBorg]

Success on x86_64-darwin (full log)

Attempted: picard-tools

Partial log (click to expand)

building '/nix/store/sblc3sc4kixqyxfdbr30d13h66srjyc3-picard.jar.drv'...

trying https://github.com/broadinstitute/picard/releases/download/2.18.14/picard.jar
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100   600    0   600    0     0   2678      0 --:--:-- --:--:-- --:--:--  2690
100 14.7M  100 14.7M    0     0  7808k      0  0:00:01  0:00:01 --:--:-- 9389k
building '/nix/store/6gjs7i8ish2pdqlgkci92dapk2k1bp0n-picard-tools-2.18.14.drv'...
installing
/nix/store/8jz97bcabkr7n5hn2q6xa5yvrz1wvw8r-picard-tools-2.18.14

[GrahamcOfBorg]

Success on x86_64-linux (full log)

Attempted: picard-tools

Partial log (click to expand)

building '/nix/store/n2l0h3j9qwn3j8js9ycb0hgh169i2h2h-picard.jar.drv'...

trying https://github.com/broadinstitute/picard/releases/download/2.18.14/picard.jar
  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed
100   600    0   600    0     0   1496      0 --:--:-- --:--:-- --:--:--  1492
100 14.7M  100 14.7M    0     0  4638k      0  0:00:03  0:00:03 --:--:-- 7401k
building '/nix/store/y353ga1slzqs2n367al411p8jjcn1fzy-picard-tools-2.18.14.drv'...
installing
/nix/store/wmiksnhak7y4fkawdpaqnxdinfg2majh-picard-tools-2.18.14

[GrahamcOfBorg]

No attempt on aarch64-linux (full log)

The following builds were skipped because they don't evaluate on aarch64-linux: picard-tools

Partial log (click to expand)

a) For `nixos-rebuild` you can set
  { nixpkgs.config.allowUnfree = true; }
in configuration.nix to override this.

b) For `nix-env`, `nix-build`, `nix-shell` or any other Nix command you can add
  { allowUnfree = true; }
to ~/.config/nixpkgs/config.nix.