Combiz Khozoie
f33bc965d6
Update nfcore_custom.config
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Removed deprecated medbio config
2022-02-11 09:32:50 +00:00
Combiz Khozoie
b99b74b2d3
Update imperial.config
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Fixed indent
2022-02-11 00:26:45 +00:00
Combiz Khozoie
c5e4ac2025
Update scflow.config
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Removed line corresponding to profile deprecated by change to internal profiles
2022-02-11 00:25:44 +00:00
Combiz Khozoie
34d9e7a967
Update imperial.md
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Updated docs to reflect use of internal profiles
2022-02-11 00:08:08 +00:00
Combiz Khozoie
5aa1abda26
Delete imperial_mb.md
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Deprecated in favour of internal profiles within the single imperial.config
2022-02-11 00:07:05 +00:00
Combiz Khozoie
14c7662762
Update imperial.md
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Updated docs to reflect restructuring for internal profiles
2022-02-10 23:49:43 +00:00
Combiz Khozoie
38a05a6531
Update imperial.config
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Reworked to use internal profiles for the Imperial HPC and the MedBio cluster.
2022-02-10 23:46:14 +00:00
Combiz Khozoie
e1d0bf0cd2
Delete imperial_mb.config
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Separate config for the medbio queue now deprecated in favour of an internal profile within the main imperial.config
2022-02-10 23:44:49 +00:00
Combiz Khozoie
fe5474a029
Update imperial.config
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Multiple process level updates reflecting the latest job sizing guidelines for the Imperial HPC
2022-02-10 23:02:47 +00:00
Combiz Khozoie
81a273c730
Update imperial_mb.config
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Dropped support for pqmedbio-large which is not currently available.
2022-02-03 18:31:02 +00:00
Combiz Khozoie
2bdf5863d9
Update imperial.config
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Removed my contact details. Users can request help on the nf-core slack.
2022-02-03 18:28:11 +00:00
Combiz Khozoie
731f86e7f1
Update imperial_mb.config
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Removed my contact details. Users can request help on the nf-core slack.
2022-02-03 18:27:49 +00:00
Combiz Khozoie
453080f282
Update imperial.config
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Removed my contact details. Users can request help on the nf-core slack.
2022-02-03 18:26:30 +00:00
Harshil Patel
9792226f5c
Update genomes.config
2022-01-27 12:45:41 +00:00
Harshil Patel
c49abc2e61
Merge pull request #316 from drpatelh/nextclade
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Add --nextclade_dataset params
2022-01-17 17:35:31 +00:00
Harshil Patel
cd6b8e0f17
Add --nextclade_dataset params
2022-01-17 16:51:55 +00:00
Harshil Patel
a680207b55
Merge pull request #315 from drpatelh/nextclade
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Add Nextclade genome details to viralrecon genome config
2022-01-17 11:46:47 +00:00
Harshil Patel
f26c465bd4
Add Nextclade genome details to viralrecon genome config
2022-01-17 11:27:10 +00:00
James A. Fellows Yates
4546e0f389
Merge pull request #314 from jfy133/master
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Update eager@eva to add java buffer for bbduk
2022-01-14 07:40:56 +01:00
James A. Fellows Yates
5fd5c43906
Update eva.config
2022-01-14 07:03:05 +01:00
Maxime U. Garcia
61682f33b3
Merge pull request #310 from nf-core/praveenraj2018-patch-1
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Updated sentieon version through a new module file
2022-01-10 12:04:20 +01:00
ameynert
bfa7e0f8d7
Merge pull request #313 from nf-core/ameynert-patch-1
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Added memory & cluster options specification for eddie sarek config
2022-01-06 10:38:13 +00:00
ameynert
0f56588acc
Added memory & cluster options specification for eddie sarek config
2022-01-06 10:15:34 +00:00
praveenraj2018
53ab5ee34f
Updated sentieon version through a new module file
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A local module file has been created to run the latest version of Sentieon. Doing this change, as the new version of Sentieon has only a dependency library update, hence it should not break the Sentieon pipeline. Tested locally with a test.conf having the new process block.
2021-12-21 15:21:59 +01:00
Kevin Brick
1abb1c2d95
Merge pull request #309 from kevbrick/master
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Added config for NIH Biowulf Cluster
2021-12-20 13:05:19 -05:00
Kevin Brick
82c7d553a7
Update bind-paths
2021-12-20 11:29:09 -05:00
Kevin Brick
afb6fbb767
Trailing spaces
2021-12-17 00:46:50 -05:00
Kevin Brick
05f7b59573
Update nihbiowulf.md
2021-12-17 00:44:39 -05:00
Kevin Brick
74448de49e
Update main.yml
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add nihbiowulf
2021-12-17 00:40:43 -05:00
Kevin Brick
e523e28861
Update README.md
2021-12-17 00:39:21 -05:00
Kevin Brick
de6d3bdd5f
Update nfcore_custom.config
2021-12-17 00:38:07 -05:00
Kevin Brick
9cf4f69ff3
Add files via upload
2021-12-17 00:37:11 -05:00
Kevin Brick
87e4ece034
Add files via upload
2021-12-17 00:36:51 -05:00
Venkat Malladi
38295dfbbd
Merge pull request #308 from vsmalladi/master
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Fix name of Params
2021-12-16 14:11:53 -06:00
Venkat Malladi
306c802b4e
Fix name of Params
2021-12-16 09:27:23 -06:00
Maxime U. Garcia
58fe1a5808
Merge pull request #307 from nf-core/praveenraj2018-patch-1
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Renamed star_index directory
2021-12-14 21:38:15 +01:00
praveenraj2018
00a3ed0fa6
Formatting
2021-12-14 21:24:18 +01:00
praveenraj2018
0557f4e062
Renamed star_index directory
2021-12-14 21:15:12 +01:00
praveenraj2018
e4410065f3
Merge pull request #306 from praveenraj2018/rnavar_munin
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Added rnavar pipeline config for Munin
2021-12-14 16:10:59 +01:00
Maxime U. Garcia
5e92e2ef11
Update conf/pipeline/rnavar/munin.config
2021-12-14 16:10:31 +01:00
Praveen
4c6e7262c2
Updated README.md
2021-12-14 04:04:17 +01:00
Praveen
cc1fe5b5a0
Addressed review feedback
2021-12-14 03:58:54 +01:00
Praveen
b4d5330c0e
Added rnavar pipeline config for Munin
2021-12-14 03:52:37 +01:00
James A. Fellows Yates
71b17ff970
Merge pull request #301 from jfy133/eva
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eager@eva: and bump the second samtools_flagstat process overhead 🙄
2021-12-07 11:04:33 +01:00
James A. Fellows Yates
55f452d81e
Update eva.config
2021-12-07 09:27:28 +01:00
James A. Fellows Yates
f7b5a8e800
Merge pull request #300 from jfy133/eva
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eager @ eva: reintroduce bionode8, bump overhead for flagstat
2021-12-03 11:16:24 +01:00
James Fellows Yates
e8252ad61c
Reintroduce bionode8, bump overhead for flagstat
2021-12-03 08:36:31 +01:00
James A. Fellows Yates
f8246b8554
Merge pull request #299 from jfy133/eva
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Exclude bionode8 for eager@eva
2021-12-02 10:57:44 +01:00
James Fellows Yates
06b40798c0
Exclude bionode8
2021-12-02 10:35:35 +01:00
Venkat Malladi
7a49a66b36
Merge pull request #298 from vsmalladi/azure
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Fix Azure Markdown
2021-11-18 23:52:24 -06:00
