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* mosdeph: fix compilation with nim 0.19royneary2018-10-31
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* star: 2.6.1a -> 2.6.1cR. RyanTM2018-10-24
| | | | | | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/star/versions
* bowtie2: 2.3.4.2 -> 2.3.4.3R. RyanTM2018-10-03
| | | | | | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/bowtie2/versions
* picard-tools: 2.18.12 -> 2.18.14 (#46978)R. RyanTM2018-09-29
| | | | | | 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
* platypus: 2017-03-07 -> 2018-07-22Orivej Desh2018-09-21
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* samtools: 1.8 -> 1.9Orivej Desh2018-09-21
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* seaview: init at 4.7 (#46595)Markus J. Ankenbrand2018-09-13
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* star: 2.6.0c -> 2.6.1a (#46176)R. RyanTM2018-09-12
| | | | | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from star
* Merge pull request #45102 from jbedo/hisat2Matthew Bauer2018-09-10
|\ | | | | hisat2: init 2.1.0
| * hisat2: init 2.1.0Justin Bedo2018-08-17
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* | picard-tools: 2.18.11 -> 2.18.12R. RyanTM2018-09-06
| | | | | | | | | | | | | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from picard-tools
* | Merge pull request #45263 from r-ryantm/auto-update/bowtie2xeji2018-08-21
|\ \ | | | | | | bowtie2: 2.3.4.1 -> 2.3.4.2
| * | bowtie2: broken on aarch64Uli Baum2018-08-21
| | | | | | | | | | | | never built as far back as hydra logs go.
| * | bowtie2: 2.3.4.1 -> 2.3.4.2R. RyanTM2018-08-17
| |/ | | | | | | | | | | | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/bowtie2/versions.
* | Merge pull request #44250 from jbedo/strelkaJoachim F2018-08-20
|\ \ | | | | | | strelka: init 2.9.5
| * | strelka: init 2.9.5Justin Bedo2018-08-20
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* | | Merge branch 'staging-next'Vladimír Čunát2018-08-17
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| * \ \ Merge branch 'master' into staging-nextVladimír Čunát2018-08-17
| |\ \ \ | | | | | | | | | | | | | | | Hydra: ?compare=1473892
| * \ \ \ Merge branch 'master' into staging-nextVladimír Čunát2018-08-13
| |\ \ \ \ | | | |_|/ | | |/| | | | | | | | | | | | | | | | | | | | | | Conflicts: gobby and libinfinity - I took the hand-edited versions instead of those resuting from the mass-replacement. Hydra: ?compare=1473190
| * | | | Merge remote-tracking branch 'upstream/master' into stagingTuomas Tynkkynen2018-08-04
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| * | | | | treewide: Make configureFlags listsJohn Ericson2018-08-03
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* | | | | | Merge pull request #45217 from r-ryantm/auto-update/igvJörg Thalheim2018-08-17
|\ \ \ \ \ \ | |_|_|_|/ / |/| | | | | igv: 2.4.13 -> 2.4.14
| * | | | | igv: 2.4.13 -> 2.4.14R. RyanTM2018-08-17
| | |_|/ / | |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/igv/versions.
* / | | | picard-tools: 2.18.10 -> 2.18.11R. RyanTM2018-08-16
|/ / / / | | | | | | | | | | | | | | | | | | | | | | | | 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.
* | / / vcftools: 0.1.15 -> 0.1.16R. RyanTM2018-08-08
| |/ / |/| | | | | | | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/vcftools/versions.
* | | somatic-sniper: disable parallel buildingUli Baum2018-08-03
|/ / | | | | | | to fix non-deterministic failure
* / somatic-sniper: init 1.0.5.0 (#43403)Justin Bedő2018-08-01
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* bcftools: 1.8 -> 1.9 (#43950)R. RyanTM2018-07-30
| | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/bcftools/versions.
* Merge pull request #43913 from r-ryantm/auto-update/picard-toolsFrederik Rietdijk2018-07-22
|\ | | | | picard-tools: 2.18.9 -> 2.18.10
| * picard-tools: 2.18.9 -> 2.18.10R. RyanTM2018-07-21
| | | | | | | | 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.
* | pkgs/*: remove unreferenced function argumentsvolth2018-07-21
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* igv: 2.4.11 -> 2.4.13R. RyanTM2018-07-13
| | | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/igv/versions.
* igv: 2.4.10 -> 2.4.11 (#43003)R. RyanTM2018-07-09
| | | | | | | | | | | | | | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/igv/versions. These checks were done: - built on NixOS - Warning: no invocation of /nix/store/yc18a4s9rs8m6wjbsmi1lax5v0kkyl2i-igv-2.4.11/bin/igv 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 2.4.11 with grep in /nix/store/yc18a4s9rs8m6wjbsmi1lax5v0kkyl2i-igv-2.4.11 - directory tree listing: https://gist.github.com/ca4cf484aab1c1590806c47c4fdde1d7 - du listing: https://gist.github.com/f7ff80a2429cf0a942195db4944659b1
* Merge pull request #43096 from jbedo/mosdepthSilvan Mosberger2018-07-09
|\ | | | | mosdepth: init 0.2.3
| * mosdepth: init 0.2.3Justin Bedo2018-07-09
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* | picard-tools: 2.18.7 -> 2.18.9 (#42967)R. RyanTM2018-07-06
|/ | | | | | | | | | | | | | | 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. These checks were done: - built on NixOS - Warning: no invocation of /nix/store/ah3v1x61gmj9lan8a3qvy3824lqvjdgi-picard-tools-2.18.9/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 2.18.9 with grep in /nix/store/ah3v1x61gmj9lan8a3qvy3824lqvjdgi-picard-tools-2.18.9 - directory tree listing: https://gist.github.com/0972acdc51fe8a1cde470e4ab5e87993 - du listing: https://gist.github.com/6a66b6723ce4887cd108678369b87360
* Merge pull request #42571 from iimog/hmmerMatthew Bauer2018-06-28
|\ | | | | hmmer: init at 3.1b2
| * hmmer: init at 3.1b2Markus Ankenbrand2018-06-25
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* | treewide: http -> https sources (#42676)Silvan Mosberger2018-06-28
|/ | | | | | | | | * treewide: http -> https sources This updates the source urls of all top-level packages from http to https where possible. * buildtorrent: fix url and tab -> spaces
* picard-tools: 2.18.5 -> 2.18.7 (#41975)R. RyanTM2018-06-18
| | | | | | | | | | | | | | | 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. These checks were done: - built on NixOS - Warning: no invocation of /nix/store/siklhy9pl9xl9cq3nlqhln038554h72g-picard-tools-2.18.7/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 2.18.7 with grep in /nix/store/siklhy9pl9xl9cq3nlqhln038554h72g-picard-tools-2.18.7 - directory tree listing: https://gist.github.com/a49ed5f2ff312ce6180174183901e38f - du listing: https://gist.github.com/243f4d89d2100ef27d332e3562d5f173
* raxml: 8.2.11 -> 8.2.12 (#41964)R. RyanTM2018-06-18
| | | | | | | | | | | | | | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/RAxML/versions. These checks were done: - built on NixOS - /nix/store/w8iy7fvdwhjw7zx1dkga3v56fz59s7r8-RAxML-8.2.12/bin/raxmlHPC-PTHREADS-SSE3 passed the binary check. - 1 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 8.2.12 with grep in /nix/store/w8iy7fvdwhjw7zx1dkga3v56fz59s7r8-RAxML-8.2.12 - directory tree listing: https://gist.github.com/8a2b70b299e53bfee9f18d2ab8cd5f9f - du listing: https://gist.github.com/02803409663f19671adc6be233a327fd
* picard-tools: 2.18.4 -> 2.18.5R. RyanTM2018-05-26
| | | | | | | | | | | | | | | | 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. These checks were done: - built on NixOS - Warning: no invocation of /nix/store/y7q0bsph0zldfjkz4ci3f41ba5va810w-picard-tools-2.18.5/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 2.18.5 with grep in /nix/store/y7q0bsph0zldfjkz4ci3f41ba5va810w-picard-tools-2.18.5 - directory tree listing: https://gist.github.com/1938ad634fa882d94e8d28fd1625547c - du listing: https://gist.github.com/4b51e89646327900f6ef6f2242f5d0bd
* star: 2.5.3a -> 2.6.0c (#40518)Arcadio Rubio García2018-05-15
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* minimap2: init at 2.10Arcadio Rubio García2018-05-14
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* picard-tools: 2.18.3 -> 2.18.4R. RyanTM2018-05-12
| | | | | | | | | | | | | 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. These checks were done: - built on NixOS - Warning: no binary found that responded to help or version flags. (This warning appears even if the package isn't expected to have binaries.) - found 2.18.4 with grep in /nix/store/k62ym9i08d0w9sgmdjjfyy4lf2n9ig7p-picard-tools-2.18.4 - directory tree listing: https://gist.github.com/4d9e3062e701681d9b53033dc9511663
* Merge pull request #39740 from r-ryantm/auto-update/picard-toolsMatthew Justin Bauer2018-05-04
|\ | | | | picard-tools: 2.18.2 -> 2.18.3
| * picard-tools: 2.18.2 -> 2.18.3R. RyanTM2018-04-30
| | | | | | | | | | | | | | | | | | | | | | | | | | 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. These checks were done: - built on NixOS - Warning: no binary found that responded to help or version flags. (This warning appears even if the package isn't expected to have binaries.) - found 2.18.3 with grep in /nix/store/q67hqz7716nf3c4f8rjmlpf2dqbb06rz-picard-tools-2.18.3 - directory tree listing: https://gist.github.com/6b71ce718f18ef6a48c05457cd0e583b
* | paml: 4.9g -> 4.9hR. RyanTM2018-05-03
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/paml/versions. These checks were done: - built on NixOS - ran ‘/nix/store/39cfy96430yznv6h3cg7zd8850i6kdl1-paml-4.9h/bin/chi2 -h’ got 0 exit code - ran ‘/nix/store/39cfy96430yznv6h3cg7zd8850i6kdl1-paml-4.9h/bin/chi2 --help’ got 0 exit code - ran ‘/nix/store/39cfy96430yznv6h3cg7zd8850i6kdl1-paml-4.9h/bin/chi2 help’ got 0 exit code - found 4.9h with grep in /nix/store/39cfy96430yznv6h3cg7zd8850i6kdl1-paml-4.9h - directory tree listing: https://gist.github.com/b2a37e7cd2b4b41178f0698f3aac69e2
* | conglomerate: init at 2017-09-10Ben Darwin2018-04-27
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* Merge branch 'master' into minc_ecosystemJörg Thalheim2018-04-21
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generated by cgit-pink 1.4.1 (git 2.36.1) at 2024-06-30 17:04:34 +0000