Alexander Peltzer
f877644059
Merge branch 'master' into master
2020-05-29 11:43:47 +02:00
Alexander Peltzer
dd56355c7c
Update bi.md
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No trailing spaces it said.
2020-05-28 10:18:16 +02:00
Alexander Peltzer
f4df5b5a75
Add BI Docs
2020-05-28 10:16:22 +02:00
Alexander Peltzer
6011419454
Merge pull request #154 from jfy133/master
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Update SHH nf-core/eager group-specific profiles
2020-05-27 17:52:09 +02:00
James A. Fellows Yates
0943ba088a
Mention SHH EAGER group-specific profiles
2020-05-26 11:14:42 +02:00
James A. Fellows Yates
2e3b577fb3
Typo fixes
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I'll never forgive our directory for that name...
2020-05-07 11:50:11 +02:00
James A. Fellows Yates
38e9e54932
Merge pull request #151 from jfy133/master
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Add additional custom nf-core/eager params for SHH profile
2020-05-07 09:25:02 +02:00
James A. Fellows Yates
0a312cd2c9
Update shh.md
2020-05-07 09:17:56 +02:00
James A. Fellows Yates
4804052b23
Update SHH nf-core/eager pipeline docs
2020-05-04 21:04:17 +02:00
MaxUlysse
e6f4d58fa6
update rnafusion munin specific config
2020-04-28 17:06:04 +02:00
Adrian
1e68a10ef0
adding documentation for icr_davros
2020-04-28 16:02:26 +01:00
MaxUlysse
50a44d037b
better docs and organisation of giles
2020-04-09 17:02:36 +02:00
Daniel Lundin
c8de9be701
Adding UPPMAX specific config for ampliseq
2020-03-31 15:17:24 +02:00
MaxUlysse
d4bea56f52
add munin/rnafusion specific docs + markdownlint
2020-03-11 14:23:23 +01:00
MaxUlysse
7c60096952
update docs for munin/sarek specific config
2020-03-11 14:17:24 +01:00
MaxUlysse
250035e71d
fix path to config files
2020-03-11 14:11:23 +01:00
Edmund Miller
1c62395332
docs(utd_ganymede): add initial documentation
2020-03-09 20:07:46 -05:00
James A. Fellows Yates
52214cc22d
Merge pull request #134 from marcel-keller/ebc
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adding Estonian Biocentre cluster profile
2020-03-09 16:09:27 +01:00
marcel-keller
dcb478c904
Update ebc.md
2020-03-09 17:07:03 +02:00
marcel-keller
88cfe11187
Update ebc.md
2020-03-09 16:32:14 +02:00
marcel-keller
418f4b52b6
Create ebc.md
2020-03-09 16:23:16 +02:00
Alexander Peltzer
b8d020b78c
Update cfc.md
2020-03-09 15:12:49 +01:00
Evan Floden
6141e008a3
Update google.md
2020-03-09 14:44:58 +01:00
Evan Floden
d8ad376f71
Merge branch 'master' into master
2020-03-06 10:29:50 +00:00
Evan Floden
f5364e45e7
Update google.md or markdown linting
2020-03-06 11:27:44 +01:00
Alexander Peltzer
59a787b179
Merge pull request #122 from marchoeppner/ccga-config
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Removing old CCGA profile from docs and linting
2020-03-06 11:17:08 +01:00
mseybold
2135996b13
Update cfc.md
2020-03-06 11:12:21 +01:00
Evan Floden
87e8da61a4
Readme formatting
2020-03-06 05:58:59 +00:00
Evan Floden
8a9d3ad8a0
First commit of Google Cloud config
2020-03-06 05:47:29 +00:00
Marc Hoeppner
6c5a5c8bcb
Removing old CCGA profile from docs and linting
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Removing CCGA profile from master config
Removing CCGA profile from master config
2020-02-24 12:16:33 +01:00
Maxime Garcia
08e2804b37
Merge branch 'master' into Uppmax
2020-02-20 17:18:46 +01:00
MaxUlysse
aa905cd645
add UPPMAX specific sarek config
2020-02-20 17:14:18 +01:00
marchoeppner
0830203b70
Adding new CCGA Med Cluster to profiles
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Updating README and fixing linting errors in CCGA_MED profile
Fixing order in profile queue and removed leading slash from readme for ccga profile docs
Fixing order in profile queue and removed leading slash from readme for ccga profile docs
2020-02-11 11:12:51 +01:00
James A. Fellows Yates
799f2d5788
Grammar tweak
2019-12-21 20:59:48 +01:00
James A. Fellows Yates
435a5892ea
Updated docs corresponding to 638758423a
2019-12-21 20:59:25 +01:00
drpatelh
bcb8950c2f
Change URL to website
2019-12-18 10:57:12 +00:00
drpatelh
be5ed21269
Update docs
2019-12-18 10:54:31 +00:00
drpatelh
0779d25255
Update docs
2019-12-12 13:02:51 +00:00
Alexander Peltzer
a6d08ed646
Adjust custom pipeline config for ampliseq on BINAC
2019-12-11 16:09:44 +01:00
Maxime Garcia
9497b78149
Merge pull request #100 from MaxUlysse/UPPMAX
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Improve UPPMAX configs
2019-12-06 10:52:44 +01:00
Maxime Garcia
79528de92f
Update docs/uppmax.md
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Co-Authored-By: Phil Ewels <phil.ewels@scilifelab.se>
2019-12-06 10:47:09 +01:00
jfy133
1650080b6e
Linting
2019-12-05 17:03:07 +01:00
jfy133
731372dac2
Added SHH specific EAGER configuration
2019-12-05 17:01:10 +01:00
MaxUlysse
a63ec24626
Merge branch 'UPPMAX' of github.com:MaxUlysse/nf-core_configs into UPPMAX
2019-12-05 15:18:04 +01:00
MaxUlysse
99afe86ea9
update docs
2019-12-05 15:18:01 +01:00
Maxime Garcia
78826c9d4e
Merge branch 'master' into UPPMAX
2019-12-05 12:52:34 +01:00
Alexander Peltzer
9cdb915efb
Merge pull request #101 from jfy133/master
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Condensing SHH profile(s) with sub-profiles
2019-12-05 12:51:31 +01:00
jfy133
54dafbcfa3
Condensing SHH profiles following https://github.com/nf-core/configs/pull/100
2019-12-05 12:09:11 +01:00
MaxUlysse
cdbdbee0eb
replace -profile uppmax_devel by -profile uppmax,devel
2019-12-05 11:49:44 +01:00
Maxime Garcia
2669401a72
Merge branch 'master' into sarek
2019-11-27 13:27:43 +01:00
James A. Fellows Yates
c725c71e4d
Merge branch 'master' into master
2019-11-26 20:34:42 +01:00
jfy133
6f40c13473
Split shh config for each cluster
2019-11-26 20:20:17 +01:00
phue
672f025639
cbe: add documentation about iGenomes
2019-11-26 18:09:20 +01:00
Alexander Peltzer
81739a3907
Merge pull request #93 from jfy133/master
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Updated max resources for SHH SDAG
2019-11-26 15:56:39 +01:00
James A. Fellows Yates
89506a653c
Remove empty lines in block quotes for linting
2019-11-26 15:34:25 +01:00
James A. Fellows Yates
12ec22838c
Specified max sources currently at SDAG limits (exceeds cdag)
2019-11-26 15:29:03 +01:00
noirot
07b1f17d6a
correct md to pass linter
2019-11-26 15:02:06 +01:00
Noirot Céline
3ed206b7a7
Update docs/genotoul.md
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ok
Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
2019-11-26 14:52:45 +01:00
Noirot Céline
288294994e
Update docs/genotoul.md
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ok
Co-Authored-By: Maxime Garcia <maxime.garcia@scilifelab.se>
2019-11-26 14:52:32 +01:00
noirot
e95196451f
correct md to pass linter
2019-11-26 14:47:23 +01:00
noirot
42c949db95
correct md to pass linter
2019-11-26 14:43:42 +01:00
Alexander Peltzer
23f9fd2d73
Merge branch 'master' into master
2019-11-26 14:20:36 +01:00
Noirot Céline
42d99e7006
Update genotoul.md
2019-11-26 13:18:34 +01:00
Maxime Garcia
f6c2e4c65f
Update docs/pipeline/sarek/munin.md
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Update conf/pipeline/sarek/munin.config
testing out module and containers collision
2019-11-26 11:57:51 +01:00
MaxUlysse
25d4e92935
update docs
2019-11-26 11:55:36 +01:00
Maxime Garcia
b029ccaa59
Update docs/pipeline/sarek/munin.md
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Update conf/pipeline/sarek/munin.config
2019-11-26 11:48:11 +01:00
MaxUlysse
283abcece4
update docs
2019-11-26 11:25:29 +01:00
MaxUlysse
cd1d0b5f8f
Add specific sarek config base, munin specific sarek config and docs
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rename file
improve configs
remove unnecessary params
2019-11-26 11:25:29 +01:00
Alexander Peltzer
aeb2fb6dc0
Fix all the markdownlinting errors
2019-11-26 00:48:17 +01:00
Noirot Céline
ed4436c1a6
Merge branch 'master' into master
2019-11-25 16:24:12 +01:00
noirot
db51c49b2f
Add genotoul config
2019-11-25 14:54:25 +01:00
MaxUlysse
08a6b74825
add new profile to be shared: awsbatch
2019-11-19 14:16:06 +01:00
Alexander Peltzer
d2603a134e
Add in denbi cloud configs
2019-11-11 12:26:19 +01:00
Phil Ewels
6790dbd4a3
Merge pull request #82 from arontommi/dev
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documentation on how to fix bianca "Requested node configuration is not available" problem
2019-11-08 15:07:07 +01:00
Phil Ewels
5e7d13df89
Update uppmax.md
2019-11-08 10:59:34 +01:00
arontommi
3f534c154e
documentation on how to fix bianca cluster configuration problem
2019-11-07 13:06:31 +01:00
arontommi
99f4d9b9bd
documentation on how to fix bianca cluster configuration problem
2019-11-06 13:10:09 +01:00
maxibor
47a7d57db4
update shh doc
2019-10-28 16:09:00 +01:00
phue
5a9dbe5d7c
MENDEL is no more
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the cluster is no longer operational, was replaced by CBE
2019-10-28 14:11:34 +01:00
Alexander Peltzer
5348b8c609
Revert "BINAC SMP / Short / Long Updates"
2019-10-28 13:12:31 +01:00
Alexander Peltzer
b5b2dd817f
Merge all
2019-10-27 13:24:45 +01:00
Anthony Bretaudeau
883a761651
add link
2019-10-16 18:45:26 +02:00
Anthony Bretaudeau
1f2786c78f
add genouest cluster
2019-10-16 18:15:04 +02:00
phue
9b3fda36f6
update singularity version
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singularity/3.1.0 is not available anymore
2019-10-10 21:22:19 +02:00
phue
5e257e7e9a
add cbe profile
2019-09-22 16:45:09 +02:00
MaxUlysse
f69524d59a
feat: update docs
2019-08-07 11:56:10 +02:00
MaxUlysse
332ba0dadb
fix: update and rearrange munin configuration file and docs
2019-08-07 11:10:48 +02:00
Martin Proks
c583aa0233
Added kraken config ( #15 )
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* Added kraken template
* docs: updated some info
* fix: updated igenomes_base path
2019-08-05 11:19:05 +02:00
Alexander Peltzer
82ffedf895
Drop aquila
2019-07-30 18:53:36 +02:00
Alexander Peltzer
4e48d4cc62
Fix remaining points by drpatelh
2019-07-30 18:53:00 +02:00
Alexander Peltzer
35c715ca3b
Merge remote-tracking branch 'upstream/master'
2019-07-30 16:53:19 +02:00
Remi Planel
1c0d596582
Merge remote-tracking branch 'upstream/master'
2019-07-30 16:15:20 +02:00
Remi Planel
be28a34839
Updat Pasteur doc
2019-07-30 16:12:30 +02:00
Remi Planel
64e78a3dc1
Update the doc
2019-07-30 15:17:25 +02:00
Remi Planel
6f264ac2ca
Add pasteur profile doc
2019-07-30 15:15:30 +02:00
marchoeppner
b74f020f14
Update docs/ccga_dx.md
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Co-Authored-By: Harshil Patel <drpatelh@users.noreply.github.com>
2019-07-29 12:45:30 +02:00
marchoeppner
71bc98afae
Adding config file for CCGA dx cluster
2019-07-29 12:06:29 +02:00
Olga Botvinnik
474e98daaf
Merge branch 'master' into olgabot/czb-update
2019-07-09 16:02:25 -07:00
marchoeppner
fe0153befd
Updating CCGA documentation
2019-07-05 08:30:02 +02:00
marchoeppner
d66bf4e478
Updating CCGA documentation
2019-07-05 08:28:18 +02:00
Olga Botvinnik
b82d68c009
Add docs
2019-06-24 17:55:01 -07:00
Alexander Peltzer
ebe838ac7e
Merge pull request #45 from czbiohub/olgabot/czbiohub
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[WIP] Add CZ Biohub
2019-06-06 13:35:34 +02:00
Olga Botvinnik
ad7e26ea69
Write out docs for czbiohub"
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git push
2019-06-05 14:42:24 -07:00
Alexander Peltzer
515e9484de
Merge pull request #44 from drpatelh/dev
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Add proper nf-core logo
2019-06-01 12:36:57 +02:00
drpatelh
ac804859f4
Add nf-core logo
2019-05-31 00:47:06 +01:00
Alexander Peltzer
0acdcc3813
Add Aquila Config Singapore
2019-05-04 23:20:15 +02:00
Tobias Schraink
d91b06d884
added missing line in prince and bigpurple docs
2019-04-18 14:25:27 -04:00
Tobias Schraink
4ba831705d
added nyu prince and bigpurple md files, added singularity cacheDir to prince and bigpurple configs
2019-04-18 14:13:02 -04:00
KochTobi
aaa7be049a
Update cfc config
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* Change singularity version documentation
2019-03-16 14:11:59 +01:00
James A. Fellows Yates
e503a3a064
Added new cluster and singularity cache
2019-03-14 21:21:31 +01:00
phue
13df59bfaf
remove singularity support
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reasons:
* the kernel running on the compute nodes does not support overlayfs und thus containers downloaded from
public registries won't run because they lack the /lustre mountpoint
* building containers manually using the Singularity file would work, however nf-core pipelines will stop
providing these files in future releases
2019-03-12 17:57:31 +00:00
phue
6fc65b54a2
add mendel.md
2019-02-27 22:26:31 +00:00
drpatelh
24fb466bc0
Changed description for Singularity image download
2019-01-11 14:52:15 +00:00
Harshil Patel
789d211b18
Update munin.md
2019-01-11 14:32:35 +00:00
Martin Proks
7acd9cf7df
Updating suggested changes
2019-01-11 15:28:10 +01:00
Martin Proks
89dbb6c061
Setting Singularity as default method
2019-01-11 14:37:12 +01:00
Martin Proks
548c8bca3f
Updated munin doc and configuration
2019-01-10 15:46:16 +01:00
James A. Fellows Yates
f62613588f
Removed newline typo
2019-01-07 20:35:40 +01:00
James A. Fellows Yates
2344b16693
Merge pull request #1 from jfy133/SHH_documentation
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Create shh documentation
2019-01-07 20:28:47 +01:00
James A. Fellows Yates
7f3acac4f4
Create shh documentation
2019-01-07 20:28:31 +01:00
James A. Fellows Yates
0325e556f2
Fixed the mysterious 'insert here' Institution
2019-01-07 20:25:39 +01:00
Phil Ewels
66a08891c7
Documentation tweaks
2019-01-07 14:25:06 +01:00
Phil Ewels
325dfe3968
Update docs/binac.md
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Co-Authored-By: apeltzer <apeltzer@users.noreply.github.com>
2019-01-07 12:11:31 +01:00
Phil Ewels
1758fbc11c
Update docs/cfc.md
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Co-Authored-By: apeltzer <apeltzer@users.noreply.github.com>
2019-01-07 12:11:19 +01:00
Phil Ewels
6d14461adc
Update docs/template.md
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Co-Authored-By: apeltzer <apeltzer@users.noreply.github.com>
2019-01-07 12:11:02 +01:00
Phil Ewels
94e546fd4b
Update docs/uzh.md
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Co-Authored-By: apeltzer <apeltzer@users.noreply.github.com>
2019-01-07 12:10:41 +01:00
Alexander Peltzer
02e97811c6
Get rid of template / iGenomes stuff
2019-01-07 11:21:17 +01:00
Alexander Peltzer
6a12e763ea
Get rid of examples
2019-01-07 11:16:58 +01:00
Alexander Peltzer
ce4b0373fa
Add in UZH
2019-01-06 15:35:26 +01:00
Alexander Peltzer
0d7ae3717f
Add in docs for CFC cluster
2019-01-06 15:34:52 +01:00
Alexander Peltzer
d5f41d837c
Remove non-required heading
2019-01-04 17:14:08 +01:00
Alexander Peltzer
c2fa8d5441
Add BINAC documentation
2019-01-04 17:13:03 +01:00
Alexander Peltzer
bcd85940fa
Add Template for Documentation of Cluster Resources
2019-01-04 17:12:59 +01:00
drpatelh
c58aaef190
Minor modifications
2018-11-29 17:49:19 +00:00
drpatelh
08dce7453a
Added bash statement to code-block
2018-11-29 15:12:35 +00:00
drpatelh
891d83b249
Fixed a type
2018-11-29 12:15:02 +00:00
drpatelh
fd226aac33
Properly changed link to crick.config
2018-11-28 17:04:33 +00:00
drpatelh
a2c848c8e4
Changed link to crick.config
2018-11-28 17:03:35 +00:00
drpatelh
c49ef07a1e
Changed link to reference genomes docs
2018-11-28 17:02:02 +00:00
drpatelh
64dd812fad
Bit of restructuring
2018-11-28 16:58:09 +00:00
drpatelh
0c598846e0
Modified README and added crick config
2018-11-27 09:17:55 +00:00