millironx/nf-configs
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  • ec638e62de
         Apply suggestions from code review James A. Fellows Yates 2022-09-15 09:10:29 +0200
  • b8751af6c6
         Update conf/pipeline/mag/eva.config James A. Fellows Yates 2022-09-14 16:17:17 +0200
  • c0effc0366 Add HKI profile files James Fellows Yates 2022-09-14 15:34:27 +0200
  • 8ea01e2041
         Merge branch 'nf-core:master' into master James A. Fellows Yates 2022-09-14 15:01:34 +0200
  • 3fcf708134
         Merge pull request #414 from sheffield-bioinformatics-core/sbc_sharc James A. Fellows Yates 2022-09-14 11:46:41 +0200
  • 326ab0036e
         Merge pull request #415 from Sage-Bionetworks-Workflows/bgrande/sage-tweaks Maxime U. Garcia 2022-09-14 11:31:10 +0200
  • be356eb400 Ran prettier on docs/sbc_sharc.md lquayle88 2022-09-14 10:24:56 +0100
  • 9167e81214
         Added other Java processes with memory overhead, sorted alphabetically ameynert 2022-09-14 09:07:09 +0100
  • 32403b6222 Updated pipeline config docs for atacseq, chipseq and rnaseq lquayle88 2022-09-14 08:46:11 +0100
  • 91bfa7341f Made changes requested for PR lquayle88 2022-09-14 08:42:40 +0100
  • 3d3ee391be Limit the number of parallel transfers Bruno Grande 2022-09-13 13:15:30 -0700
  • 61ae463606
         Updated sbc_sharc.md Lewis Quayle 2022-09-13 17:13:57 +0100
  • 9fef35d7d3 Updated pipeline configs for atacseq and chipseq lquayle88 2022-09-13 17:08:56 +0100
  • a9b62c53e0 Added global institutional and pipeline configs for sbc_sharc lquayle88 2022-09-13 17:02:44 +0100
  • 91ef9a3241
         Added another Java process with overhead ameynert 2022-09-13 09:27:13 +0100
  • abae5c4bd8 Decrease AWS Batch queue size Bruno Grande 2022-09-12 11:40:43 -0700
  • a808933da8
         Added another Java process that needs memory overhead ameynert 2022-09-09 08:37:21 +0100
  • 29a0b30d85
         Updated process names to Sarek 3 ameynert 2022-09-07 16:00:52 +0100
  • d84754d328
         Merge pull request #5 from nf-core/master ameynert 2022-09-07 15:45:08 +0100
  • b20f28a3c9 biohpc_gen: load charliecloud from lrz software tree and remove conda fallback phue 2022-09-05 11:25:33 +0200
  • 47fa890ad7
         Merge pull request #407 from Sage-Bionetworks-Workflows/bgrande/sage-aws Bruno Grande 2022-09-01 13:29:49 -0700
  • 80831358f9
         Merge branch 'master' into bgrande/sage-aws Bruno Grande 2022-09-01 13:21:36 -0700
  • 8448bb9a1e
         re-define TMPDIR Lara Ianov 2022-09-01 10:12:07 -0500
  • 6b83603325
         Merge pull request #400 from SPPearce/crukmi Simon Pearce 2022-09-01 14:01:00 +0100
  • a142ad7eae Added link to Sarek specific documentation SPearce 2022-09-01 13:55:08 +0100
  • 5981b643c5 Updated the sarek pipeline config SPearce 2022-09-01 11:47:12 +0100
  • 2c738cae33
         Update crukmi.config Simon Pearce 2022-09-01 11:24:11 +0100
  • a8faeda141
         Update crukmi.config Simon Pearce 2022-09-01 11:23:07 +0100
  • 800931bff2 Add Sarek specific config SPearce 2022-09-01 11:13:23 +0100
  • ba1d3f24cc
         Update crukmi.config Simon Pearce 2022-09-01 11:07:14 +0100
  • 897d0a188b
         Update nfcore_custom.config Simon Pearce 2022-09-01 10:32:43 +0100
  • df685f4f0f
         Merge branch 'master' into crukmi Simon Pearce 2022-09-01 10:29:08 +0100
  • 3664b4812d
         Merge pull request #411 from nf-core/docs-improvement James A. Fellows Yates 2022-09-01 11:24:31 +0200
  • 81768e16a9
         Merge branch 'nf-core:master' into crukmi Simon Pearce 2022-09-01 10:20:25 +0100
  • 5769927bbc
         Merge branch 'master' into docs-improvement James A. Fellows Yates 2022-09-01 11:15:10 +0200
  • ebcc3d278f
         Merge pull request #410 from nf-core/chear-var-fix Maxime U. Garcia 2022-09-01 11:13:37 +0200
  • 51f0359b3d Add documentation for when you need to use an environmental variable James Fellows Yates 2022-09-01 11:12:15 +0200
  • 14a97ad0e8
         Merge branch 'master' into crukmi Simon Pearce 2022-09-01 10:07:24 +0100
  • b22e8b79c7 Fix cheaha config due to use of environmental variable James Fellows Yates 2022-09-01 11:01:23 +0200
  • 69468e7ca7
         Merge pull request #409 from kalayaneech/master ameynert 2022-09-01 09:55:12 +0100
  • 28e59e38b4
         Run prettier ameynert 2022-09-01 09:28:05 +0100
  • 8e275182ea
         Update main.yml Kalayanee Chairat 2022-09-01 15:16:56 +0700
  • bf2ab39ea0
         Update README.md Kalayanee Chairat 2022-09-01 15:15:51 +0700
  • 9681716205
         Update adcra.config Kalayanee Chairat 2022-09-01 15:11:18 +0700
  • 700f14d828
         Merge pull request #1 from nf-core/master Kalayanee Chairat 2022-09-01 15:07:43 +0700
  • 864da0b5be
         Merge branch 'master' into crukmi Simon Pearce 2022-08-31 18:19:47 +0100
  • 9a37404a04
         Merge branch 'master' into bgrande/sage-aws Bruno Grande 2022-08-31 09:22:07 -0700
  • 179b343bd2 Incorporate resource limits Bruno Grande 2022-08-31 09:18:27 -0700
  • c883723559 Simplify resource adjustments Bruno Grande 2022-08-31 09:10:30 -0700
  • 1e1ca1e96b Incorporating executor options SPearce 2022-08-31 15:35:57 +0100
  • bfeafdbf25
         Merge pull request #408 from nf-core/rnafusion_config_hasta Annick Renevey 2022-08-31 14:36:08 +0200
  • 242101db16 fix extra space Annick Renevey 2022-08-31 14:26:32 +0200
  • 0851903f66 include new config in pipeline configs file Annick Renevey 2022-08-31 14:19:07 +0200
  • 51871ea6fc rnafusion setup for hasta usage Annick Renevey 2022-08-31 11:32:01 +0200
  • 08b62ede83
         Merge pull request #404 from nf-core/cheaha_singularity_update Lara Ianov 2022-08-30 14:45:50 -0500
  • 90f638d376 Updating the cheaha documentation to clarify that /data/temporary-scratch/atrull will be used as storage for files that would normally go into one of the temporary locations when using Singularity Austyn Trull 2022-08-29 10:47:46 -0500
  • b33aef1431
         Merge pull request #386 from andrewfrank/patch-2 James A. Fellows Yates 2022-08-29 08:30:39 +0200
  • c70a95f9c9
         Merge branch 'master' into patch-2 James A. Fellows Yates 2022-08-29 08:23:31 +0200
  • 9c8cb71bc7
         Merge branch 'master' into bgrande/sage-aws Bruno Grande 2022-08-25 16:29:20 -0700
  • 317e5a16cb Improve AWS-related config for Sage profile Bruno Grande 2022-08-25 16:24:52 -0700
  • 84b0b705a2
         Merge pull request #405 from drpatelh/monkeypox Harshil Patel 2022-08-25 12:57:43 +0100
  • 93c4ba67a0 adding adcra configuration kalayaneech 2022-08-25 16:17:09 +0700
  • 8b9661825b Replace NC_063383.1 fasta and gff and add Nextclade config Harshil Patel 2022-08-24 15:21:44 +0100
  • d71e31c378
         Merge pull request #403 from drpatelh/monkeypox Harshil Patel 2022-08-24 12:16:21 +0100
  • 8dcfcfd856 Add monkeypox genome files to viralrecon genome config file Harshil Patel 2022-08-24 12:13:17 +0100
  • 8d5ae4c3ab Committing changes made by Brandon Wilk so that singularity containers will use scratch space Austyn Trull 2022-08-23 15:30:13 -0500
  • 49c71e0c28
         Merge pull request #363 from ramprasadn/feat/hasta_update Ramprasad Neethiraj 2022-08-23 22:14:18 +0200
  • 9182b55acc
         Merge branch 'master' into feat/hasta_update Ramprasad Neethiraj 2022-08-23 11:21:58 +0200
  • 9c26cfddaa
         Merge pull request #390 from raysloks/feat/hasta_java_memory_fix Anders Jemt 2022-08-22 15:46:39 +0200
  • 7ff2977a29 Merge branch 'master' of github.com:nf-core/configs into feat/hasta_update Ramprasad Neethiraj 2022-08-18 15:58:56 +0200
  • dd63dee7aa update conf Ramprasad Neethiraj 2022-08-18 15:56:41 +0200
  • 1c942759ea update sentieon Ramprasad Neethiraj 2022-08-18 15:52:31 +0200
  • a6cce4ab6a
         Merge branch 'master' into feat/hasta_java_memory_fix Ramprasad Neethiraj 2022-08-18 13:36:08 +0200
  • ea89504bc7
         Merge pull request #397 from ErikDanielsson/add-citation-cff Phil Ewels 2022-08-18 09:27:08 +0200
  • 8ae3cba5e3 Reduce MPILEUP to 5GB SPearce 2022-08-15 11:35:59 +0100
  • d0662a3acb Ran prettier SPearce 2022-08-15 09:33:30 +0100
  • a97b887d93 Written a help file SPearce 2022-08-12 16:57:04 +0100
  • 0bfedde296 Initial attempt at a CRUKMI config file SPearce 2022-08-12 15:43:22 +0100
  • 99df08f409
         Merge pull request #395 from ClinicalGenomicsGBG/medair Gwenna Breton 2022-08-09 11:03:56 +0200
  • 0e4f2b40d3
         Added email of IT group Gwenna Breton 2022-08-08 16:14:17 +0200
  • ffefefe0ab
         Added contact emails Gwenna Breton 2022-08-08 16:11:55 +0200
  • 2740b5efbf
         Update docs/medair.md Gwenna Breton 2022-08-08 16:08:05 +0200
  • 648025c1ce
         Clarified where to store singularity images Gwenna Breton 2022-08-08 16:04:21 +0200
  • 6aa78833c3
         Merge branch 'master' into medair Gwenna Breton 2022-08-01 16:46:55 +0200
  • 0b47849532
         Update mpcdf.config James A. Fellows Yates 2022-07-27 14:23:29 +0200
  • 36487c8c25
         Merge pull request #399 from nf-core/sanger Alexander Peltzer 2022-07-20 16:51:46 +0200
  • dda1d810b1 Latest stable version (rather than an edge one) Matthieu Muffato 2022-07-20 14:35:39 +0100
  • 1ee20f0bb0 2 cores should be enough for the nextflow manager itself Matthieu Muffato 2022-07-20 14:35:22 +0100
  • 60dc451569 The oversubscribed queue is recommended for workflow managers Matthieu Muffato 2022-07-20 14:34:59 +0100
  • 1f1a9ac5f0 ISG provide the module, not the pathogen informatics team Matthieu Muffato 2022-07-20 14:34:25 +0100
  • 2aad355fbf The config doesn't mandate Singularity any more (Conda is fine too) Matthieu Muffato 2022-07-20 14:32:43 +0100
  • fd87fbcb9d Sanger profile update Priyanka Surana 2022-07-20 13:22:51 +0100
  • 58508c4fbc Sanger profile update Priyanka Surana 2022-07-20 13:14:42 +0100
  • a02bd46617
         Merge pull request #398 from nvnieuwk/lower-submission-rate-for-vsc_ugent Maxime U. Garcia 2022-07-14 16:03:46 +0200
  • f40825ac14 lower submission rate for vsc_ugent Nicolas Vannieuwkerke 2022-07-14 15:50:50 +0200
  • c6d59bf633
         Merge pull request #396 from drpatelh/nextclade Alexander Peltzer 2022-07-12 10:19:15 +0200
  • 5d7789792f Add CITATION.cff and update .editorconfig Erik Danielsson 2022-07-12 09:57:20 +0200
  • 2ab126fa4d
         Update default Nextclade dataset to 2022-06-14T12:00:00Z Harshil Patel 2022-07-11 18:28:41 +0100
  • ff55ec67b4 update to current java+nextflow module combination qlr900 2022-07-07 14:30:48 +0200
  • 6b9cdc8ef3
         Added info about Sentieon singularities Gwenna Breton 2022-07-07 14:24:15 +0200