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Author SHA1 Message Date
Justin Bedo 712f1ee9aa singularity: 3.2.1 -> 3.6.1 2020-07-22 08:51:37 +10:00
Justin Bedo d8d6ecc418 mosdepth: 0.2.6 -> 0.2.9 2020-04-21 19:42:05 +02:00
Justin Bedo a8fe9e7aff delly: 0.8.1 -> 0.8.2 
Backported patch required for htslib 1.10.2
 2020-02-11 19:21:59 +11:00
Justin Bedo 56c22350c0 singularity-tools: fix buildImage 2020-02-02 09:18:39 +11:00
Justin Bedo 7f142260d3 manta: init 1.6.0 2020-01-24 02:02:19 -08:00
Justin Bedo 11460d4cac tebreak: init at 1.0 2019-12-29 17:16:10 +11:00
Justin Bedo 2191912274 minia: init at 3.2.1 2019-12-20 11:27:04 +11:00
Justin Bedo 6741cff527 last: init at 1042 2019-12-20 11:27:02 +11:00
Justin Bedo 4b3112f8a4 pythonPackages.bx-python: init at 0.8.6 2019-12-20 11:27:00 +11:00
Justin Bedo cf436a812a pythonPackages.python-lzo: init at 1.12 2019-12-19 20:47:45 +11:00
Justin Bedo 28a057a56b bedtools: 2.29.1 -> 2.29.2 2019-12-18 10:39:25 +11:00
Justin Bedo c3f09c33eb strelka: fix broken build 2019-12-17 11:20:32 +11:00
Justin Bedo 50fbca4bfc bedtools: fix clang builds 2019-12-11 09:27:57 +11:00
Justin Bedo 592d288aa2 bedtools: 2.29.0 -> 2.29.1 2019-12-10 13:24:27 +11:00
Justin Bedo 6beabe7d2c bedtools: 2.28.0 -> 2.29.0 2019-09-06 21:23:15 +02:00
Justin Bedo 3f83cbf538 xenomapper: init 1.0.2 2019-09-05 20:50:22 +10:00
Justin Bedo f889214bc1 pythonPackages.cnvkit: init at 0.9.6 2019-08-13 10:14:10 -04:00
Justin Bedo 4bb197f4b2 pythonPackages.pyfaidx: init at 0.5.5.2 2019-08-13 10:14:06 -04:00
Justin Bedo 5859c5b472 pythonPackages.pomegranate: 0.8.1 -> 0.11.0 2019-08-13 10:13:38 -04:00
Justin Bedo 11ed86d873 bedtools: 2.27.1 -> 2.28.0 2019-07-20 14:15:38 +02:00
Justin Bedo d2d449cea5 hisat2: fix missing perl dependency 2019-07-05 10:29:51 +10:00
Justin Bedo b8b71aaaf9 octopus: init 0.6.3-beta 2019-06-19 23:09:33 +10:00
Justin Bedo 086d5998dd singularity: 3.0.1 -> 3.2.1 2019-06-18 12:05:42 +10:00
Justin Bedo 1be8ba08d3 strelka: 2.9.5 -> 2.9.10 2019-06-17 16:09:25 +10:00
Justin Bedő 05ab1a6e5a Merge branch 'master' into singularity 2019-02-17 21:49:37 +00:00
Justin Bedo 75dd587793 snpeff: 4.3q -> 4.3t 2019-01-31 15:15:05 +11:00
Justin Bedo 3bab170088 singularity: update module to correctly wrap suid binary 2019-01-31 09:21:18 +11:00
Justin Bedo 5611397f33 singularity: 2.6.0 -> 3.0.1 2019-01-31 09:21:18 +11:00
Justin Bedo 8c5251e3c0 bowtie2: fix missing dependencies 2018-12-05 10:51:30 +11:00
Justin Bedo 27960b6acf strelka: init 2.9.5 2018-08-20 08:58:22 +10:00
Justin Bedo 9bd7a4f520 hisat2: init 2.1.0 2018-08-17 23:03:42 +10:00
Justin Bedő 51fc0ef8d2 somatic-sniper: init 1.0.5.0 (#43403) 2018-08-01 22:11:13 +02:00
Justin Bedo 59141de608 mosdepth: init 0.2.3 2018-07-09 08:51:49 +10:00
Justin Bedő 1e0a2eafbf singularity-tools: create mount points for image building (#41470) 2018-06-18 23:50:06 +02:00
Justin Bedo 48808f1c93 singularity: add missing file dependency 2018-05-09 10:19:38 +10:00
Justin Bedo f48ff649fe snpeff: 4.3t -> 4.3q 2018-03-12 16:03:44 +11:00
Justin Bedo 5c1e42276d singularity: 2.4 -> 2.4.2 2018-03-12 15:13:31 +11:00
Justin Bedo 8d03d9b9af rPackages: add bioconductor archive url 2018-02-21 09:58:17 +11:00
Justin Bedo cfc07bcf0e bioconductor: 3.4 -> 3.6 2018-02-21 09:58:17 +11:00
Justin Bedo a49c91f655 snpeff: 4.3p -> 4.3t 2017-12-21 10:52:26 +11:00
Justin Bedo db927ea35b singularity: 2.2 -> 2.4 2017-12-21 10:50:06 +11:00
Justin Bedo 94ec54598c snpeff: 4.3i -> 4.3p 2017-06-13 15:31:52 +10:00
Justin Bedő c5015b77af platypus: fix platforms metadata (#24666) 2017-04-06 10:10:54 +01:00
Justin Bedo 56aeb271c9 bedtools: fix clang build 2017-03-22 12:00:24 +11:00
Justin Bedo 1ac797861b SnpEff: init at 4.3i 2017-03-08 22:43:50 +01:00
Justin Bedo 076e513b94 varscan: init at 2.4.2 2017-03-08 22:43:49 +01:00
Justin Bedo 4bb50fd08c picard-tools: init at 2.7.1 2017-03-08 22:43:45 +01:00
Justin Bedo 7f214e6410 bedtools: init at 2.26.0 2017-03-08 22:36:29 +01:00
Justin Bedo 661048c803 platypus: init at 2017-03-07 2017-03-08 22:36:03 +01:00
Justin Bedo 4c2d75f58c R: unmark edgeR and limma as broken 2017-02-24 15:52:10 +11:00
Justin Bedo 4bb8727284 R: 3.2.4 -> 3.3.2 2017-02-24 15:22:12 +11:00
Justin Bedo 04121437be singularity: init 2.2 2016-11-15 09:11:53 +11:00
Justin Bedo a6d6a3972f plink-ng: init at 1.90b3 2016-11-14 20:28:39 +11:00
Justin Bedo ec31e2cc27 Fix bcftools installation prefix 2016-11-09 08:03:04 +11:00
Justin Bedo cd1bacb03d Update ImageMagick version 2014-10-20 17:49:30 +11:00
Justin Bedo 28af151e1a Added missing curl dependency to RCurl package 2014-09-03 15:48:33 +10:00
Justin Bedo befd1289ac Updated texlive to latest release 2014-08-01 10:19:00 +10:00
Justin Bedo 57f1baa66d Added CRAN archive to R package derivation to prevent R expressions from 
breaking when any package is updated.
 2014-07-08 11:02:05 +10:00
Justin Bedo 0a12a50b11 Removed CRAN mirror that was incorrectly handling 404 errors, causing 
builder to abort.
 2014-07-08 11:00:41 +10:00
Justin Bedo 3c4b9b26cf Updated some CRAN packages and fixed dependencies 2014-05-15 09:05:09 +10:00
Justin Bedo fdc6e4372f Wrapped R's package system similarly to perlPackages 2013-09-28 13:19:43 +02:00
Justin Bedo c38ffa7b7d Added expression for PLINK 2013-09-19 09:39:14 +10:00
Justin Bedo 6c2985e8d7 Update CUDA Toolkit to 5.5 2013-08-27 13:44:56 +02:00
Justin Bedo 9ab74cd977 Add expression for flpsed 2013-08-13 08:20:08 +02:00