Alexander Peltzer
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5988c51361
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Merge pull request #211 from DoaneAS/master
Adding WCM.config for Weill Cornell Medicine cluster
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2021-03-23 14:58:27 +01:00 |
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Edmund Miller
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a6975cdd4e
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fix(ganymede): large => high
Co-authored-by: drpatelh <drpatelh@users.noreply.github.com>
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2021-03-22 12:42:56 -05:00 |
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Edmund Miller
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34ccce9531
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fix(ganymede): Add process resources
Trimgalore though it can be a bottom neck, doesn't require the 1 big
memory node we have and can be run on the genomics queue.
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2021-03-21 21:47:59 -05:00 |
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Edmund Miller
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4570718b12
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fix(ganymede): Add TMPDIR and SINGULARITY_CACHEDIR env variables
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2021-03-21 21:45:39 -05:00 |
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Asaf Peer
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30c864e112
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added JAX conf
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2021-03-21 06:49:11 -04:00 |
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ameyner2
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059d353a1e
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Removed Conda, added automount Singularity
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2021-03-18 12:31:56 +00:00 |
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Rike
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6221b67bcf
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Give Strelka a complete compute node
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2021-03-18 11:11:02 +01:00 |
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Rike
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b1846af9d3
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reduce mapping resource further to compute node
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2021-03-18 11:10:00 +01:00 |
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FriederikeHanssen
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67c93a4743
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Update conf/pipeline/sarek/cfc.config
Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com>
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2021-03-18 11:06:38 +01:00 |
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Rike
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b70097e495
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remove new line
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2021-03-17 15:46:18 +01:00 |
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ameyner2
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d4cd07c646
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Typo in beforescript
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2021-03-17 09:21:26 +00:00 |
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Noirot Céline
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7e9f83ee81
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Add IFB config
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2021-03-16 15:54:19 +01:00 |
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ameyner2
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cfe13fe6c1
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Fixed typo & added singularity tmpdir
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2021-03-15 15:42:30 +00:00 |
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Ashley S Doane
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e7f8189dfc
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Create wcm.config
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2021-03-11 13:52:11 -05:00 |
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Rike
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bb124a9be8
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Reduce vc to run on compute
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2021-03-11 16:11:41 +01:00 |
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FriederikeHanssen
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79ddbe1fea
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Add missing bracket
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2021-03-11 09:29:03 +01:00 |
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FriederikeHanssen
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0057132e02
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remove check_reource statement
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2021-03-11 09:27:08 +01:00 |
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phue
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da3bd2693d
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cbe: add rapid qos
and update config url
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2021-03-10 11:26:01 +01:00 |
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FriederikeHanssen
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eb9012919c
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Set values for processes with max_mem/max_cpus
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2021-03-10 11:16:18 +01:00 |
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Graeme Grimes
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babeccd020
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changed # to // for comments
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2021-03-04 16:45:21 +00:00 |
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ameynert
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6f09a233f0
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Added singularity module
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2021-03-04 14:46:23 +00:00 |
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ameynert
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3af2c6409f
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Initial commit of eddie.config
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2021-03-03 09:59:16 +00:00 |
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maxibor
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286e18b80c
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update shh config after CDAG departure
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2021-02-17 10:22:05 +01:00 |
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drpatelh
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01a4f8559e
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Update links to be consistent
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2021-02-16 13:17:16 +00:00 |
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Harshil Patel
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6ffaf922c5
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Update genomes.config
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2021-02-16 10:28:32 +00:00 |
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Marc Hoeppner
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1f2fce00aa
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Updating the CCGA DX profile to new storage system
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2021-02-16 09:02:16 +01:00 |
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Harshil Patel
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4de0855218
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Update genomes.config
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2021-02-15 18:48:03 +00:00 |
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drpatelh
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9d500cf679
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Reorder params
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2021-02-15 17:02:26 +00:00 |
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drpatelh
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f283dfb2dc
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Add ARTIC primer sets to genome config
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2021-02-15 16:58:30 +00:00 |
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James Fellows Yates
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537f52a640
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Add MPI-EVA profile
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2021-02-14 17:50:20 +01:00 |
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ggabernet
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9b5bcbd434
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update aws clipath
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2021-02-09 22:06:59 +01:00 |
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ggabernet
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0909708b97
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update with upstream
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2021-02-09 22:01:27 +01:00 |
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James A. Fellows Yates
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86566ddd3b
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Merge pull request #204 from jfy133/master
Add a 'big_data' profile for eager @ SHH
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2021-02-04 15:07:52 +01:00 |
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James A. Fellows Yates
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e32f1e46ff
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Update shh.config
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2021-02-04 08:13:16 +01:00 |
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James A. Fellows Yates
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c515a401c7
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Update shh.config
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2021-02-04 08:06:35 +01:00 |
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James A. Fellows Yates
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82fe8a04be
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Update shh.config
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2021-02-04 08:02:33 +01:00 |
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James A. Fellows Yates
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e7ac0bae13
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Update shh.config
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2021-02-04 08:00:57 +01:00 |
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James A. Fellows Yates
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eb725f9ea3
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Update shh.config
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2021-02-03 20:13:09 +01:00 |
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Charles Plessy
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1608b36dcf
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Institutional profile for Okinawa Institute of Science and Technology
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2021-02-02 17:40:10 +09:00 |
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Thiseas C. Lamnidis
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713a032a36
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Add debug profile
which deactivates cleanup of workdir after successful run
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2021-01-26 15:08:21 +01:00 |
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James A. Fellows Yates
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26d164ca74
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Remove ceh profile for now
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2021-01-21 13:15:08 +01:00 |
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Åshild J. Vågene
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594985f1ee
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Update and rename ceh.config to seg_globe.config
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2021-01-21 11:43:34 +01:00 |
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Åshild J. Vågene
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8fa720b9cc
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Update conf/ceh.config
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2021-01-21 11:15:06 +01:00 |
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Åshild J. Vågene
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f8973f153a
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Update ceh.config
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2021-01-21 00:31:49 +01:00 |
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Åshild J. Vågene
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91594dffea
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Update ceh.config
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2021-01-21 00:29:43 +01:00 |
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Åshild J. Vågene
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c11c26f15f
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Create ceh.config
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2021-01-20 23:45:26 +01:00 |
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James A. Fellows Yates
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1c25cb033b
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Add big_data profile
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2021-01-19 13:53:01 +01:00 |
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rbpisupati
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9b5ac5c89d
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added anaconda module for cbe
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2021-01-15 12:55:46 +01:00 |
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James A. Fellows Yates
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a4c55b3ea9
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Fix time limit 0-9 typo
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2021-01-06 10:44:12 +01:00 |
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Combiz Khozoie
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17cf4e3b35
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fixed indents
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2020-12-18 15:34:56 +00:00 |
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Combiz Khozoie
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3824403b4e
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removed workDir from Imperial configs
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2020-12-18 10:31:36 +00:00 |
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Combiz Khozoie
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a61992d144
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Added institutional configs for Imperial and Imperial MEDBIO. Added institutional pipeline configs for scflow for Imperial and Imperial MEDBIO
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2020-12-18 10:21:26 +00:00 |
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marcel-keller
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c9ceaff3b3
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change of directory for conda environments
change of directory due to recent changes in our infrastructure
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2020-12-09 15:11:21 +02:00 |
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emnilsson
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8cc2fc5ecb
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Merge pull request #193 from emnilsson/master
Modified ampliseq-specific uppmax-config
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2020-12-02 13:40:43 +01:00 |
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Alexander Peltzer
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99985c658f
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Merge pull request #194 from marcel-keller/ebc
Update ebc.config
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2020-11-26 14:12:33 +01:00 |
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marcel-keller
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5590a9743a
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Update ebc.config
queueSize to 64
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2020-11-26 15:05:25 +02:00 |
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Emelie Nilsso
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febf38dd8e
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Removed an old process so that only relevant processes are included
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2020-11-26 13:38:47 +01:00 |
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Emelie Nilsso
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d61ed01d2d
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Updated process names according to ampliseq main.nf
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2020-11-25 17:50:30 +01:00 |
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Emelie Nilsso
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37e7cfae2c
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Removed unnecessary code that was used to troubleshoot
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2020-11-24 07:14:23 +01:00 |
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Emelie Nilsso
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cd59bba83e
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Merge branch 'master' of https://github.com/nf-core/configs
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2020-11-24 07:10:05 +01:00 |
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Emelie Nilsso
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c47088cda2
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Merge remote-tracking branch 'origin'
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2020-11-23 21:34:08 +01:00 |
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Emelie Nilsso
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2ea06ffab8
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Modified uppmax and ampliseq specific config to fit with the divided preparation of the database
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2020-11-23 21:20:36 +01:00 |
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Thiseas C. Lamnidis
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71d1ff2226
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Add params block to sdag queue
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
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2020-11-18 13:04:46 +01:00 |
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Thiseas C. Lamnidis
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da781907f2
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Move sdag queue specification block in sdag profile
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2020-11-17 19:45:06 +01:00 |
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Maxime Borry
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c95fd9d52f
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Merge pull request #186 from jfy133/shh-singularity-runoptions
Remove custom singularity runOptions from SHH config
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2020-11-10 15:39:40 +01:00 |
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James A. Fellows Yates
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9d4d682867
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Update shh.config
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2020-11-10 15:14:03 +01:00 |
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Gisela Gabernet Garriga
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885f0ce5f6
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awsbatch config update
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2020-11-09 22:41:38 +01:00 |
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lecorguille
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90d1f9072b
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Add ABiMS - autoMounts = false
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2020-10-22 18:18:55 +02:00 |
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lecorguille
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a63ca751ee
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Add ABiMS
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2020-10-22 16:57:41 +02:00 |
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James A. Fellows Yates
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804f53c58c
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Merge pull request #178 from jfy133/master
Add Max Planck Computing and Data Facility Cobra/Raven Clusters
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2020-10-22 13:34:11 +02:00 |
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James A. Fellows Yates
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3995057d7f
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Update mpcdf.config
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2020-10-22 10:42:46 +02:00 |
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James A. Fellows Yates
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05deeca2d6
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Update mpcdf.config
|
2020-10-15 14:22:35 +02:00 |
|
James A. Fellows Yates
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e26c22b2f1
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Update shh.config
|
2020-09-29 14:03:35 +02:00 |
|
MaxUlysse
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2ccbdd3367
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update params to latest version
|
2020-09-28 13:59:42 +02:00 |
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MaxUlysse
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8c0cc4b9ec
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code polishing
|
2020-09-25 09:57:50 +02:00 |
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MaxUlysse
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81f910cc95
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add specific BamQC config
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2020-09-25 09:49:43 +02:00 |
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MaxUlysse
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fbe7bd133a
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update uppmax specific sarek config
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2020-09-25 08:33:53 +02:00 |
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James A. Fellows Yates
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11f1fb71db
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Update mpcdf.config
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2020-09-16 10:21:58 +02:00 |
|
James A. Fellows Yates
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bbbdd3cb0f
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Update mpcdf.config
|
2020-09-16 10:21:42 +02:00 |
|
James A. Fellows Yates
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5b3492d240
|
Update mpcdf.config
|
2020-09-16 10:21:26 +02:00 |
|
James A. Fellows Yates
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3115963b3e
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Update mpcdf.config
|
2020-09-15 19:53:27 +02:00 |
|
James A. Fellows Yates
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c6f7573d01
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Update mpcdf.config
|
2020-09-15 17:48:54 +02:00 |
|
James A. Fellows Yates
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bf87ec24e7
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Update mpcdf.config
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2020-09-15 17:45:38 +02:00 |
|
Edmund Miller
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2c06019d89
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fix(utd): Add check for less than 12 cpu
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2020-09-13 20:46:14 -05:00 |
|
Edmund Miller
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dc2735207e
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feat(utd): add Kim queue
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2020-09-13 20:46:10 -05:00 |
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James A. Fellows Yates
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3b7902d11b
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Mad multi-core increase CPUs on retry
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2020-09-06 08:23:35 +02:00 |
|
James A. Fellows Yates
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4335e5deb7
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Update mpcdf.config
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2020-09-04 20:17:09 +02:00 |
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James A. Fellows Yates
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b4e275c3b9
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Add MPCDF for EAGER
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2020-09-04 19:57:25 +02:00 |
|
James A. Fellows Yates
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5c7ab234b6
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Create mpcdf.config
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2020-09-04 19:55:40 +02:00 |
|
James A. Fellows Yates
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0a685c1cc2
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Update mpcdf.config
|
2020-09-03 20:24:11 +02:00 |
|
James A. Fellows Yates
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42a1a15970
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Create mpcdf.config
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2020-09-03 20:11:56 +02:00 |
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James A. Fellows Yates
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c3fa87e4bc
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Add microbiome screening profile for NT sized MALT runs for nf-core/eager@SHH
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2020-08-11 09:18:36 +02:00 |
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drpatelh
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b804076959
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Remove hard Singularity version
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2020-08-03 11:38:10 +01:00 |
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maxibor
|
69a0bd572b
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add temporary CDAG setting for SHH config
|
2020-07-23 15:38:28 +02:00 |
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James A. Fellows Yates
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d38ffc289b
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Merge pull request #173 from jfy133/shh-eager-hops-update
Remove now deprecated EAGER flag for HOPS profile
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2020-07-20 11:34:49 +02:00 |
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James A. Fellows Yates
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57ac9257a9
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Remove now deprecated EAGER flag for HOPS profile
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2020-07-20 11:29:12 +02:00 |
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Alexander Peltzer
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a498e98342
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Merge pull request #170 from jfy133/master
Make walltimes more sophisticated and add a HOPS profile for nf-core/eager @ SHH
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2020-07-15 15:11:24 +02:00 |
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James A. Fellows Yates
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84e03b8264
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Re-bump default walltimes after debugging/testing
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2020-07-11 18:31:04 +02:00 |
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James A. Fellows Yates
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8f6409d144
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Remove min support percent value to avoid confusion
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2020-07-08 15:26:19 +02:00 |
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James A. Fellows Yates
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1af9ce293c
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Update hops profile based on requests from pathogen group
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2020-07-08 15:22:33 +02:00 |
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