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picard-tools: 2.21.3 -> 2.21.6 #78261

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merged 1 commit into from Jan 23, 2020
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r-ryantm
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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"'.

meta.homepage for picard-tools is: '"https://broadinstitute.github.io/picard/"

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Checks done (click to expand)
  • built on NixOS

  • The tests defined in passthru.tests, if any, passed

  • 0 of 0 passed binary check by having a zero exit code.

  • 0 of 0 passed binary check by having the new version present in output.

  • found 2.21.6 with grep in /nix/store/7idgbm09cdjx54zkkvxj1i0ngh18sfcs-picard-tools-2.21.6

Rebuild report (if merged into master) (click to expand)

4 total rebuild path(s)

1 package rebuild(s)

1 x86_64-linux rebuild(s)
1 i686-linux rebuild(s)
1 x86_64-darwin rebuild(s)
1 aarch64-linux rebuild(s)

First fifty rebuilds by attrpath
picard-tools

Instructions to test this update (click to expand)

Either download from Cachix:

nix-store -r /nix/store/7idgbm09cdjx54zkkvxj1i0ngh18sfcs-picard-tools-2.21.6 \
  --option binary-caches 'https://cache.nixos.org/ https://r-ryantm.cachix.org/' \
  --option trusted-public-keys '
  r-ryantm.cachix.org-1:gkUbLkouDAyvBdpBX0JOdIiD2/DP1ldF3Z3Y6Gqcc4c=
  cache.nixos.org-1:6NCHdD59X431o0gWypbMrAURkbJ16ZPMQFGspcDShjY=
  '

(r-ryantm's 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 picard-tools https://github.com/r-ryantm/nixpkgs/archive/fff7a7a8620c195cfbac227e33d1c1263ba38dee.tar.gz

After you've downloaded or built it, look at the files and if there are any, run the binaries:

ls -la /nix/store/7idgbm09cdjx54zkkvxj1i0ngh18sfcs-picard-tools-2.21.6
ls -la /nix/store/7idgbm09cdjx54zkkvxj1i0ngh18sfcs-picard-tools-2.21.6/bin

cc @jbedo for testing.

@jbedo
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jbedo commented Jan 22, 2020

lgtm

@ryantm ryantm merged commit a6dc361 into NixOS:master Jan 23, 2020
@r-ryantm r-ryantm deleted the auto-update/picard-tools branch January 25, 2020 23:23
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3 participants