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  • 5b890d571a adding icr_davros to list Adrian 2020-06-26 13:40:15 +0100
  • e375ad97ad reverting autoMounts due to bug Adrian 2020-06-26 13:39:37 +0100
  • a7c8cbc410 Fix new CI test Phil Ewels 2020-06-26 14:30:53 +0200
  • b587a2d031 Remove env vars from CI test and try running -show-profiles Phil Ewels 2020-06-26 14:24:51 +0200
  • 28027a8489 Prince config - use function to check if env SCRATCH is set Phil Ewels 2020-06-26 14:22:32 +0200
  • da46b1cd9a Remove --custom_config_base from CI test command Phil Ewels 2020-06-26 14:13:49 +0200
  • 824d9b86bc Set params.custom_config_base in nextflow.config Phil Ewels 2020-06-26 14:08:24 +0200
  • cd9fbb22dc
         Merge pull request #161 from ewels/uct_hpc Phil Ewels 2020-06-22 09:18:43 +0200
  • 7774a6a8f3
         Merge pull request #163 from piotr-faba-ardigen/add_bi_config Alexander Peltzer 2020-06-19 08:57:44 +0200
  • cb26bef3f3 resolve #162 bug Piotr Faba 2020-06-18 20:30:05 +0200
  • bb7f67e2b5
         Merge pull request #160 from ewels/master Alexander Peltzer 2020-06-17 19:20:07 +0200
  • 18a1a319ec More uct_hex references Phil Ewels 2020-06-17 15:25:07 +0200
  • 29f5fa6ce4 uct_hpc docs, readme Phil Ewels 2020-06-17 15:22:42 +0200
  • 53e118210f Copy over HPC config Phil Ewels 2020-06-17 15:20:22 +0200
  • dbfcd7c5e9 Rename uct_hex > uct_hpc Phil Ewels 2020-06-17 15:17:22 +0200
  • 17824d2d62 Merge czbiohub_aws_highpriority profile into czbiohub_aws Phil Ewels 2020-06-16 15:20:39 +0200
  • e091ec259e
         Merge pull request #158 from phue/singularity_global Phil Ewels 2020-06-05 12:20:39 +0200
  • 6d356cc918 CBE: don't load singularity module phue 2020-06-05 12:07:26 +0200
  • adf90f3994
         Merge pull request #146 from adrlar/master Alexander Peltzer 2020-06-03 20:09:49 +0200
  • 3e4db8c845 adding icr_davros to test Adrian 2020-06-03 14:55:58 +0100
  • f877644059
         Merge branch 'master' into master Alexander Peltzer 2020-05-29 11:43:47 +0200
  • 0d5899eb26
         Merge pull request #157 from nf-core/bi-docs Alexander Peltzer 2020-05-28 10:25:19 +0200
  • dd56355c7c
         Update bi.md Alexander Peltzer 2020-05-28 10:18:16 +0200
  • f4df5b5a75
         Add BI Docs Alexander Peltzer 2020-05-28 10:16:22 +0200
  • 0efa9f248e
         Add BI to main readme.md Alexander Peltzer 2020-05-28 10:12:50 +0200
  • 32ec230098
         Merge pull request #156 from piotr-faba-ardigen/add_bi_config Alexander Peltzer 2020-05-27 21:03:15 +0200
  • f139750bf4 print the error message before throwing Exception Piotr Faba 2020-05-27 19:14:43 +0200
  • 3c695ba71c test error display Piotr Faba 2020-05-27 18:00:47 +0200
  • 6011419454
         Merge pull request #154 from jfy133/master Alexander Peltzer 2020-05-27 17:52:09 +0200
  • 27f3207cb9
         Merge pull request #155 from piotr-faba-ardigen/add_bi_config Alexander Peltzer 2020-05-27 17:49:41 +0200
  • 18d8edb046 add description and profile Piotr Faba 2020-05-27 17:41:19 +0200
  • f5e2a9f9f3 try without dummy.config: use relative path Piotr Faba 2020-05-27 16:55:37 +0200
  • 3ad0003979 test without dummy config Piotr Faba 2020-05-27 16:46:08 +0200
  • 1a9db371c3 remove echos Piotr Faba 2020-05-27 16:43:32 +0200
  • ac47d020cb debug: continue Piotr Faba 2020-05-27 16:38:11 +0200
  • ff5fdd097b debug Piotr Faba 2020-05-27 16:35:55 +0200
  • ab3070582e Fix paths to dummy.config Piotr Faba 2020-05-27 16:32:19 +0200
  • 66f191a1cf declate NXF_GLOBAL_CONFIG in ci Piotr Faba 2020-05-27 16:30:00 +0200
  • 2685275952 switch include off Piotr Faba 2020-05-27 16:24:47 +0200
  • c31b03108c retry without Exception Piotr Faba 2020-05-27 16:22:56 +0200
  • 1354ae4063 add bi config Piotr Faba 2020-05-27 16:19:15 +0200
  • 0943ba088a
         Mention SHH EAGER group-specific profiles James A. Fellows Yates 2020-05-26 11:14:42 +0200
  • d070ed70d1
         Update BWA settings based on feedback James A. Fellows Yates 2020-05-26 11:11:42 +0200
  • e31e781f29
         Remove debugging James A. Fellows Yates 2020-05-26 11:07:06 +0200
  • 5981e5ec27
         Merge pull request #153 from FriederikeHanssen/cfc_scratch Harshil Patel 2020-05-22 15:48:00 +0100
  • ff915ee504
         Update shh.config James A. Fellows Yates 2020-05-12 12:47:59 +0200
  • 8225e07819
         Condensed base params and added names for debugging James A. Fellows Yates 2020-05-12 12:47:25 +0200
  • 4814bac1c3
         Fix sub-profiles James A. Fellows Yates 2020-05-12 12:42:42 +0200
  • a7afd6a4e5
         Merge pull request #152 from nf-core/jfy133-patch-1 Phil Ewels 2020-05-07 12:03:45 +0200
  • 2e3b577fb3
         Typo fixes James A. Fellows Yates 2020-05-07 11:50:11 +0200
  • 38e9e54932
         Merge pull request #151 from jfy133/master James A. Fellows Yates 2020-05-07 09:25:02 +0200
  • 0a312cd2c9
         Update shh.md James A. Fellows Yates 2020-05-07 09:17:56 +0200
  • cf6e697f0b
         Further update aln based on modifications of EAGER defaults James A. Fellows Yates 2020-05-07 09:16:08 +0200
  • 4d7e9ccf2f
         Apply suggestions from review James A. Fellows Yates 2020-05-06 08:35:23 +0200
  • 4804052b23
         Update SHH nf-core/eager pipeline docs James A. Fellows Yates 2020-05-04 21:04:17 +0200
  • d42d7f4146
         Sets the bwa aln parameter to 0.01 which is more commonly used at SHH James A. Fellows Yates 2020-05-04 21:02:16 +0200
  • d6813d9c39 Add scratch = true to avoid writing of intermediate file to /tmp FriederikeHanssen 2020-05-04 17:09:43 +0200
  • fe77f02551
         Merge pull request #150 from MaxUlysse/Munin Maxime Garcia 2020-04-28 17:46:17 +0200
  • e6f4d58fa6 update rnafusion munin specific config MaxUlysse 2020-04-28 17:06:04 +0200
  • ad12bd4ad1 testing automounts Adrian 2020-04-28 16:03:06 +0100
  • 1e68a10ef0 adding documentation for icr_davros Adrian 2020-04-28 16:02:26 +0100
  • 2300d5a962
         Update genomes.config Harshil Patel 2020-04-09 18:22:41 +0100
  • a17cac1ceb
         Merge pull request #149 from MaxUlysse/viralreconupdate Harshil Patel 2020-04-09 18:22:06 +0100
  • 53125368be
         Merge branch 'master' into viralreconupdate Harshil Patel 2020-04-09 18:21:05 +0100
  • 6834f020cb
         Update viralrecon.config Harshil Patel 2020-04-09 17:49:15 +0100
  • 5678494e45 fix typo MaxUlysse 2020-04-09 17:13:19 +0200
  • 50a44d037b better docs and organisation of giles MaxUlysse 2020-04-09 17:02:36 +0200
  • 6adc7342e9
         Merge pull request #148 from MaxUlysse/viralrecon Harshil Patel 2020-04-09 13:34:23 +0100
  • 4fd9b73cec
         Update pipeline/viralrecon.config Harshil Patel 2020-04-09 13:31:39 +0100
  • 290d0a2180
         Update pipeline/viralrecon.config Harshil Patel 2020-04-09 13:31:20 +0100
  • 19316ce852 add viralrecon specific config MaxUlysse 2020-04-09 13:40:35 +0200
  • de5b7717ff
         Merge pull request #147 from nf-core/MaxUlysse-patch-1 Maxime Garcia 2020-04-09 12:08:41 +0200
  • 34dc18faf6
         Update uppmax.config Maxime Garcia 2020-04-09 11:35:37 +0200
  • 405801638a icr_davros sarek config description Adrian Larkeryd 2020-04-08 11:56:17 +0100
  • 78be4b358e icr_davros igenomes base Adrian Larkeryd 2020-04-08 11:55:16 +0100
  • 82965d25c8 hostname warning for davros Adrian Larkeryd 2020-04-08 11:54:34 +0100
  • d1ff87a416
         Merge pull request #145 from bioatlas/master Maxime Garcia 2020-03-31 15:46:21 +0200
  • e77cd38092 Adding ampliseq/UPPMAX doc to README.md Daniel Lundin 2020-03-31 15:42:25 +0200
  • e0f9374272
         Update pipeline/ampliseq.config Daniel Lundin 2020-03-31 15:33:19 +0200
  • 5a557ed7d5
         Update pipeline/ampliseq.config Daniel Lundin 2020-03-31 15:33:12 +0200
  • 79ef94de47
         Update pipeline/ampliseq.config Daniel Lundin 2020-03-31 15:33:04 +0200
  • c8de9be701 Adding UPPMAX specific config for ampliseq Daniel Lundin 2020-03-31 15:17:24 +0200
  • 554ab6673c
         Merge pull request #144 from MaxUlysse/UPPMAX Phil Ewels 2020-03-30 17:01:38 +0200
  • db2dd4458b Merge remote-tracking branch 'upstream/master' into UPPMAX MaxUlysse 2020-03-30 16:41:08 +0200
  • 8b570507cd update s MaxUlysse 2020-03-30 16:40:11 +0200
  • 15574ab849
         Merge pull request #143 from ggabernet/master Gisela Gabernet 2020-03-23 17:46:34 +0100
  • fa01e6c5c1 add cfc_dev to test yml ggabernet 2020-03-23 17:27:36 +0100
  • d02e2b8a36 add cfc_dev and warning for binac and cfc ggabernet 2020-03-23 17:22:02 +0100
  • c81f693f73 add cfc_dev config ggabernet 2020-03-23 17:16:34 +0100
  • f414b4c52d
         Merge pull request #142 from nf-core/olgabot-patch-1 Olga Botvinnik 2020-03-17 16:46:12 -0700
  • 52369ba6ad
         Add AaegL5.0 config Olga Botvinnik 2020-03-17 16:45:20 -0700
  • 8b1835484e
         Merge pull request #141 from nf-core/MaxUlysse-patch-1 Maxime Garcia 2020-03-12 17:31:09 +0100
  • 123132d89a
         Update munin.config Maxime Garcia 2020-03-12 17:23:55 +0100
  • 5a3bdcca5b
         Merge pull request #139 from Emiller88/utd Phil Ewels 2020-03-11 16:54:01 +0000
  • 034020e202
         Apply suggestions from code review Edmund Miller 2020-03-11 16:45:20 +0000
  • a3934c84e0
         Merge pull request #140 from MaxUlysse/Munin Maxime Garcia 2020-03-11 15:55:11 +0100
  • b6d52fdb89
         Update conf/pipeline/sarek/munin.config Maxime Garcia 2020-03-11 15:48:29 +0100
  • 0f34d757a9
         Update munin.config Maxime Garcia 2020-03-11 15:48:17 +0100
  • 4a7f98a83b update TOC MaxUlysse 2020-03-11 15:41:58 +0100
  • 6be1716797 revert * to - changes MaxUlysse 2020-03-11 15:39:36 +0100