Combiz Khozoie
|
a77f718ae2
|
Merge pull request #330 from nf-core/master
Pulling master to branch
|
2022-02-11 14:18:01 +00:00 |
|
Matthias Hörtenhuber
|
b98ab26662
|
fix markdownlint errors
|
2022-02-11 14:09:16 +01:00 |
|
Combiz Khozoie
|
34d9e7a967
|
Update imperial.md
Updated docs to reflect use of internal profiles
|
2022-02-11 00:08:08 +00:00 |
|
Combiz Khozoie
|
5aa1abda26
|
Delete imperial_mb.md
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
Updated docs to reflect restructuring for internal profiles
|
2022-02-10 23:49:43 +00:00 |
|
phue
|
a6dd3aa0f1
|
cbe: update recommended nextflow version in docs
otherwise, the new anaconda requirements will cause conflicts
|
2022-02-04 10:21:52 +01:00 |
|
Lara Ianov
|
f876227a38
|
added note on screen, conda, and interactive partitions
|
2022-01-28 12:18:11 -06:00 |
|
Austyn Trull
|
06541411dd
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Initial commit of cheaha profile
|
2022-01-28 11:37:42 -06:00 |
|
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
|
9cf4f69ff3
|
Add files via upload
|
2021-12-17 00:37:11 -05:00 |
|
praveenraj2018
|
00a3ed0fa6
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Formatting
|
2021-12-14 21:24:18 +01:00 |
|
Praveen
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b4d5330c0e
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Added rnavar pipeline config for Munin
|
2021-12-14 03:52:37 +01:00 |
|
PCQ
|
a72f1a243c
|
Create marvin.md
|
2021-12-10 17:39:32 +01:00 |
|
Venkat Malladi
|
d722e7206e
|
Fix readme to remove blob account.
|
2021-11-18 18:06:54 -06:00 |
|
Phil Ewels
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4785ceccba
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Merge pull request #245 from ikeller/unibe_ibu
Unibe ibu
|
2021-11-19 00:56:25 +01:00 |
|
Phil Ewels
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b25bd1ce42
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Update docs/azurebatch.md
|
2021-11-19 00:54:39 +01:00 |
|
Venkat Malladi
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ed4c1d5f22
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Remove work_dir option.
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2021-11-18 17:52:24 -06:00 |
|
Phil Ewels
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286fa6753a
|
Apply suggestions from code review
|
2021-11-19 00:07:33 +01:00 |
|
Phil Ewels
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a26b3bf1e3
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Merge branch 'master' into unibe_ibu
|
2021-11-19 00:02:30 +01:00 |
|
Venkat Malladi
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f25dc57f00
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Fix headers.
|
2021-11-18 15:50:12 -06:00 |
|
Venkat Malladi
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1dacc2f3fe
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Fix liniting errors in headers.
|
2021-11-18 15:49:08 -06:00 |
|
Venkat Malladi
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845a9ce971
|
Update Readme with more inforamtion on the options.
|
2021-11-18 15:47:27 -06:00 |
|
Venkat Malladi
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219244f1b4
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Add in sample datastorage for Illumina Platinum genomes.
|
2021-11-18 15:28:34 -06:00 |
|
Venkat Malladi
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237f91a3b7
|
Add in minmum config for azure.
|
2021-11-18 14:51:39 -06:00 |
|
Harshil Patel
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a098ad9e06
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Add Chris as main contact at The Crick
|
2021-11-03 11:11:05 +00:00 |
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Matiss Ozols
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5222d7ed9b
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added leicester profile
|
2021-10-21 19:08:06 +01:00 |
|
Matiss Ozols
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1f58ea42c7
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added leicester profile
|
2021-10-21 19:06:03 +01:00 |
|
Matiss Ozols
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98a69683c2
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added leicester profile
|
2021-10-21 19:04:48 +01:00 |
|
Matiss Ozols
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f8b932ae2d
|
added leicester profile
|
2021-10-21 18:32:57 +01:00 |
|
James A. Fellows Yates
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73b6b74c69
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Merge pull request #279 from pierrespc/master
Added Configuration files for running in Maestro HPC at Pasteur Institute, Paris
|
2021-10-08 19:15:47 +02:00 |
|
James A. Fellows Yates
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98bbc2b744
|
Linting
|
2021-10-08 14:11:39 +02:00 |
|
James A. Fellows Yates
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b26e495e19
|
Apply suggestions from code review
|
2021-10-08 14:08:51 +02:00 |
|
pierrespc
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2d102eafbc
|
format docs
|
2021-10-08 13:46:47 +02:00 |
|
pierrespc
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035ab61f61
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added unlimitedtime profile to maestro; changed cache for bwa process
|
2021-10-08 09:05:46 +02:00 |
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pierrespc
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1621585558
|
improving documentation
|
2021-10-04 16:08:33 +02:00 |
|
pierrespc
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e5d4a357c5
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clean doc
|
2021-10-04 15:08:01 +02:00 |
|
pierrespc
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136fd44e0c
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corrected docs/maestro.config
|
2021-09-29 13:50:56 +02:00 |
|
James A. Fellows Yates
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e8b48416bc
|
Update docs/alice.md
|
2021-09-28 12:52:31 +02:00 |
|
Bjørn Peare Bartholdy
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ad83430632
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Update docs/alice.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2021-09-28 12:43:54 +02:00 |
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Bjørn Peare Bartholdy
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197bd6cfb1
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Merge branch 'nf-core:master' into master
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2021-09-28 12:09:50 +02:00 |
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bbartholdy
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b6ccb46383
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add ALICE profile
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2021-09-28 12:08:27 +02:00 |
|
Mei Wu
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c2d74b290a
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fix md
|
2021-09-27 16:25:02 +02:00 |
|
Mei Wu
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a8a2027f70
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Merge branch 'master' into hasta
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2021-09-27 16:12:23 +02:00 |
|
Mei Wu
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ae0adb056f
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initial commit
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2021-09-27 16:05:19 +02:00 |
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pierrespc
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3b593d46ec
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merged two pasteur config files for maestro
|
2021-09-20 15:14:50 +02:00 |
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Harshil Patel
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5068e4806f
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Merge pull request #271 from theoportlock/master
Adds Rosalind config for KCL!
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2021-09-17 13:36:19 +01:00 |
|
theoportlock
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0fd5265f7b
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Updates the README
|
2021-09-17 13:21:38 +02:00 |
|
pierrespc
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b9682bbc91
|
requires files edited
|
2021-09-16 12:53:17 +02:00 |
|
Marc Trunjer Kusk Nielsen
|
9a8644ef43
|
Update computerome.md
|
2021-09-15 11:10:02 +02:00 |
|
Marc Trunjer Kusk Nielsen
|
cf899a2a4e
|
Update computerome.md
|
2021-09-13 08:48:27 +02:00 |
|
Marc Trunjer Kusk Nielsen
|
f46172c25b
|
Update computerome.md
Update with usage, heavily inspired by the UPPMAX docs
|
2021-09-13 08:16:11 +02:00 |
|
Marc Trunjer Kusk Nielsen
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463df26c72
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Merge branch 'nf-core:master' into computerome
|
2021-09-10 14:47:05 +02:00 |
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theoportlock
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b240142cc3
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Adds rosalind configuration
|
2021-09-08 14:33:39 +02:00 |
|
Rogan Grant
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54298ca0f7
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Merge branch 'nf-core:master' into master
|
2021-09-04 15:37:03 -05:00 |
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Marc Trunjer Kusk Nielsen
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aad2486215
|
Create computerome.md
|
2021-08-31 14:10:19 +02:00 |
|
James Fellows Yates
|
59af7f0eee
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Delete SHH profiles due to decommissioning
|
2021-08-20 10:15:39 +02:00 |
|
Rogan Grant
|
f793ffaace
|
Updated iGenomes location
|
2021-08-03 15:10:54 -05:00 |
|
Rogan Grant
|
079258ebbb
|
Minor text edits
|
2021-07-29 11:38:40 -05:00 |
|
Rogan Grant
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482478878d
|
Added instructions for module loading
|
2021-07-28 18:11:10 -05:00 |
|
Rogan Grant
|
40170632aa
|
First draft of markdown file, with instructions for installing nextflow and getting access
|
2021-07-28 13:04:32 -05:00 |
|
Barry digby
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ef6b13e377
|
tabs rm
|
2021-07-28 12:19:11 +01:00 |
|
Barry digby
|
f62298d211
|
w
|
2021-07-28 11:44:06 +01:00 |
|
Barry digby
|
2fc8082aad
|
w
|
2021-07-28 11:43:39 +01:00 |
|
Barry digby
|
11cb6cc70d
|
w
|
2021-07-28 11:41:42 +01:00 |
|
Barry digby
|
380adf083a
|
markdowwwwn
|
2021-07-28 11:41:16 +01:00 |
|
Barry digby
|
2a06d956b3
|
mdlint so picky : (
|
2021-07-27 17:18:42 +01:00 |
|
Barry digby
|
2b6e80561a
|
Merge branch 'master' of https://github.com/nf-core/configs into
|
2021-07-27 17:13:17 +01:00 |
|
Barry digby
|
04c0da5a2f
|
nuig confg (lugh)
|
2021-07-27 17:05:27 +01:00 |
|
ameynert
|
5224eb5574
|
Updated resources folder & institute name
Local resources folder was re-organized & re-named BioinformaticsResources. Added note about viralrecon & atacseq pipeline-specific config. IGMM name-changed recently; updated to IGC.
|
2021-07-21 12:15:17 +01:00 |
|
Maxime U. Garcia
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30e058abf0
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Merge branch 'master' into master_kraken
|
2021-07-20 09:26:56 +02:00 |
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Gisela Gabernet
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e2088a008d
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Merge branch 'master' into master
|
2021-07-03 12:24:42 +02:00 |
|
ggabernet
|
ee2e8392ab
|
add aws_tower profile
|
2021-07-03 12:17:21 +02:00 |
|
Edmund Miller
|
21e1037e0c
|
docs(sysbio): Add rnaseq specific docs
|
2021-06-17 09:18:45 -05:00 |
|
Edmund Miller
|
41ae99d34a
|
feat(sysbio): Add cleanup
|
2021-06-17 08:17:55 -05:00 |
|
Edmund Miller
|
87c8e346e0
|
fix(sysbio): Change filetype
|
2021-06-17 08:14:48 -05:00 |
|
Edmund Miller
|
2a958f5ce3
|
docs: Add sysbio
|
2021-06-16 21:19:38 -05:00 |
|
ikeller
|
af1e57027d
|
edit config and readme
|
2021-05-19 09:46:07 +02:00 |
|
Barry digby
|
24a4119e43
|
memory test
|
2021-04-29 14:24:57 +01:00 |
|
Barry digby
|
8340e89768
|
nuig.config first commit
|
2021-04-28 17:28:01 +01:00 |
|
Alexander Peltzer
|
c12c373969
|
Merge pull request #235 from aunderwo/cambridge
Add Cambridge University HPC config
|
2021-04-25 10:40:56 +02:00 |
|
Anthony Underwood
|
982d1a8f2a
|
Fix markdown linting
|
2021-04-22 16:41:05 +01:00 |
|
Anthony Underwood
|
29dcc160e3
|
Create cambridge.md
|
2021-04-22 16:04:29 +01:00 |
|
Anthony Underwood
|
3e8f9b3d4e
|
Remove blank lines
|
2021-04-22 15:57:09 +01:00 |
|
Anthony Underwood
|
f414446a88
|
Add info on how to load Singularity into your path
|
2021-04-22 15:38:36 +01:00 |
|
Anthony Underwood
|
b16b011bcc
|
Add ~/bin as recommended location for nextflow executable
|
2021-04-22 12:02:11 +01:00 |
|
Anthony Underwood
|
cc18d213dc
|
Update sanger.md
|
2021-04-21 20:24:08 +01:00 |
|
Anthony Underwood
|
40eb3e0201
|
Update sanger.md
|
2021-04-21 20:20:30 +01:00 |
|
Anthony Underwood
|
7163e8723d
|
Create sanger.md
|
2021-04-21 20:17:42 +01:00 |
|
Maxime Garcia
|
1548690ca6
|
Update docs/uppmax.md
Co-authored-by: Pontus Freyhult <pontus_github@soua.net>
|
2021-04-21 12:27:27 +02:00 |
|
MaxUlysse
|
bab9241243
|
fix: markdownlint
|
2021-04-21 11:51:14 +02:00 |
|
MaxUlysse
|
844246cc7d
|
fix: clearer usage of module
|
2021-04-21 11:28:58 +02:00 |
|
MaxUlysse
|
1a7ec56c33
|
feat: more details
|
2021-04-21 11:23:50 +02:00 |
|
MaxUlysse
|
c89877decc
|
feat: use <PIPLEINE>
|
2021-04-21 11:17:06 +02:00 |
|
MaxUlysse
|
658fa7ccda
|
fix: markdownlint
|
2021-04-21 11:08:16 +02:00 |
|
Maxime Garcia
|
79e3dd65a7
|
Apply suggestions from code review
Co-authored-by: Pontus Freyhult <pontus_github@soua.net>
|
2021-04-21 11:06:39 +02:00 |
|
Maxime Garcia
|
4eea06f0db
|
Apply suggestions from code review
Co-authored-by: Pontus Freyhult <pontus_github@soua.net>
|
2021-04-20 16:03:34 +02:00 |
|
MaxUlysse
|
1c1dd952fc
|
fix: bullet list
|
2021-04-20 15:58:51 +02:00 |
|
Maxime Garcia
|
e4d2ef0984
|
Apply suggestions from code review
Co-authored-by: Phil Ewels <phil.ewels@scilifelab.se>
|
2021-04-20 15:53:54 +02:00 |
|
MaxUlysse
|
4930795cab
|
feat: more complete docs
|
2021-04-20 15:38:49 +02:00 |
|
MaxUlysse
|
10abca712b
|
fix: first draft of bianca guide
|
2021-04-16 17:01:58 +02:00 |
|
James A. Fellows Yates
|
12a4518803
|
Markdown lint fix
|
2021-04-15 22:29:15 +02:00 |
|
James A. Fellows Yates
|
0fc90586e0
|
Update mpcdf.md
|
2021-04-15 22:26:37 +02:00 |
|
MaxUlysse
|
3918e0aa9d
|
feat: remove kraken profile
|
2021-04-13 15:14:14 +02:00 |
|
James A. Fellows Yates
|
161c3a33d4
|
Merge branch 'master' into eva
|
2021-04-07 19:28:16 +02:00 |
|
Alexander Peltzer
|
91f50aad4e
|
Merge pull request #221 from phue/biohpc_gen
Add BioHPC Genomics config
|
2021-04-07 14:03:22 +02:00 |
|
James Fellows Yates
|
8dac4ca552
|
Merge branch 'eva' of github.com:jfy133/configs into eva
|
2021-04-06 17:53:32 +02:00 |
|
James Fellows Yates
|
60c66d93ac
|
Markdown linting
|
2021-04-06 17:53:27 +02:00 |
|
James A. Fellows Yates
|
832edaa450
|
Merge branch 'master' into eva
|
2021-04-06 17:51:46 +02:00 |
|
James Fellows Yates
|
be1d35840d
|
Add EVA and EAGER@EVA
|
2021-04-06 17:48:16 +02:00 |
|
ameynert
|
700776f759
|
Change to shared Singularity cache
|
2021-03-30 16:11:15 +01:00 |
|
phue
|
7c5a0871a3
|
add note about required nextflow version
|
2021-03-29 19:36:49 +02:00 |
|
phue
|
8fc60e2e70
|
add config for biohpc_gen
|
2021-03-29 19:25:58 +02:00 |
|
Gisela Gabernet
|
71a97ba316
|
Merge pull request #185 from ggabernet/master
awsbatch config update
|
2021-03-28 20:59:40 +02:00 |
|
ameynert
|
3a8e54f153
|
Removed sneaky trailing whitespace.
|
2021-03-24 13:58:10 +00:00 |
|
ameynert
|
a0d42f5153
|
Fixed code blocks for markdown linting
|
2021-03-24 13:55:31 +00:00 |
|
Phil Ewels
|
bfab371c94
|
Merge branch 'master' into master
|
2021-03-24 12:36:15 +01:00 |
|
ameynert
|
2a8ae2b214
|
Update eddie.md
|
2021-03-24 11:12:41 +00:00 |
|
ameynert
|
96fe6185a0
|
IGMM-specific docs
|
2021-03-24 11:01:41 +00:00 |
|
Asaf Peer
|
9b2d5bfead
|
Merge pull request #216 from asafpr/master
Added JAX conf
|
2021-03-24 03:31:14 -04:00 |
|
ameynert
|
791f3c95f3
|
Pipeline specific configs moving to confs/pipeline
|
2021-03-23 16:07:07 +00:00 |
|
Alexander Peltzer
|
5988c51361
|
Merge pull request #211 from DoaneAS/master
Adding WCM.config for Weill Cornell Medicine cluster
|
2021-03-23 14:58:27 +01:00 |
|
Asaf Peer
|
30c864e112
|
added JAX conf
|
2021-03-21 06:49:11 -04:00 |
|
ameynert
|
b48136a62e
|
Added pipeline-specific config files
|
2021-03-18 12:55:03 +00:00 |
|
ameynert
|
af6a6b1060
|
Details on running on eddie
Removed Conda support, Singularity by default. Added login and screen session on wild west node options.
|
2021-03-18 12:48:48 +00:00 |
|
ameynert
|
4ad6bb2bec
|
Singularity info
|
2021-03-17 14:50:40 +00:00 |
|
Noirot Céline
|
e3216ccf79
|
typo
|
2021-03-16 16:00:56 +01:00 |
|
Noirot Céline
|
cc17045914
|
Add institution
|
2021-03-16 15:58:29 +01:00 |
|
Noirot Céline
|
7e9f83ee81
|
Add IFB config
|
2021-03-16 15:54:19 +01:00 |
|
Ashley S Doane
|
6343a7f87c
|
Update wcm.md
|
2021-03-11 14:01:07 -05:00 |
|
Ashley S Doane
|
d630bcfb6c
|
Create wcm.md
|
2021-03-11 13:59:55 -05:00 |
|
ameynert
|
4c0111f598
|
Eddie profile documentation initial commit
|
2021-03-04 14:46:58 +00:00 |
|
James A. Fellows Yates
|
0bac3691e3
|
Create mpcdf.config
|
2021-02-14 18:07:40 +01:00 |
|
James Fellows Yates
|
a78aac327d
|
Linting fixes
|
2021-02-14 17:58:50 +01:00 |
|
James Fellows Yates
|
537f52a640
|
Add MPI-EVA profile
|
2021-02-14 17:50:20 +01:00 |
|
ggabernet
|
0909708b97
|
update with upstream
|
2021-02-09 22:01:27 +01:00 |
|
Charles Plessy
|
1608b36dcf
|
Institutional profile for Okinawa Institute of Science and Technology
|
2021-02-02 17:40:10 +09:00 |
|
James A. Fellows Yates
|
c4604450d8
|
Update seg_globe.md
|
2021-01-21 13:04:12 +01:00 |
|
Åshild J. Vågene
|
bcd137225e
|
Update and rename ceh.md to seg_globe.md
|
2021-01-21 11:46:46 +01:00 |
|
Åshild J. Vågene
|
ef80452577
|
Update docs/ceh.md
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
|
2021-01-21 11:16:46 +01:00 |
|
James A. Fellows Yates
|
2fd475c339
|
Fix some linting errors
|
2021-01-21 06:30:43 +01:00 |
|
Åshild J. Vågene
|
d108666950
|
Update ceh.md
|
2021-01-21 00:30:54 +01:00 |
|
Åshild J. Vågene
|
65831b73ef
|
Create ceh.md
|
2021-01-21 00:17:08 +01:00 |
|
Combiz Khozoie
|
a61992d144
|
Added institutional configs for Imperial and Imperial MEDBIO. Added institutional pipeline configs for scflow for Imperial and Imperial MEDBIO
|
2020-12-18 10:21:26 +00:00 |
|
arontommi
|
ac108379cd
|
trailing spaces
|
2020-11-26 13:58:16 +01:00 |
|
arontommi
|
c2c7265518
|
fix linting errors
|
2020-11-26 13:47:47 +01:00 |
|
arontommi
|
6480aef1db
|
typo
|
2020-11-26 11:41:33 +01:00 |
|
arontommi
|
f84fbb8f89
|
typo
|
2020-11-26 11:39:51 +01:00 |
|
arontommi
|
e6bb7a4852
|
capital names
|
2020-11-26 11:37:59 +01:00 |
|
arontommi
|
5726ef3456
|
typo
|
2020-11-26 11:26:08 +01:00 |
|