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Author SHA1 Message Date
Adrian
e375ad97ad reverting autoMounts due to bug 2020-06-26 13:39:37 +01:00
Phil Ewels
cd9fbb22dc
Merge pull request #161 from ewels/uct_hpc 
Update UCT hex -> hpc
 2020-06-22 09:18:43 +02:00
Alexander Peltzer
7774a6a8f3
Merge pull request #163 from piotr-faba-ardigen/add_bi_config 
resolve  #162 bug
 2020-06-19 08:57:44 +02:00
Piotr Faba
cb26bef3f3 resolve #162 bug 2020-06-18 20:30:05 +02:00
Alexander Peltzer
bb7f67e2b5
Merge pull request #160 from ewels/master 
Merge czbiohub_aws_highpriority profile into czbiohub_aws
 2020-06-17 19:20:07 +02:00
Phil Ewels
18a1a319ec More uct_hex references 2020-06-17 15:25:07 +02:00
Phil Ewels
29f5fa6ce4 uct_hpc docs, readme 2020-06-17 15:22:42 +02:00
Phil Ewels
53e118210f Copy over HPC config 2020-06-17 15:20:22 +02:00
Phil Ewels
dbfcd7c5e9 Rename uct_hex > uct_hpc 2020-06-17 15:17:22 +02:00
Phil Ewels
17824d2d62 Merge czbiohub_aws_highpriority profile into czbiohub_aws 2020-06-16 15:20:39 +02:00
Phil Ewels
e091ec259e
Merge pull request #158 from phue/singularity_global 
CBE: don't load singularity module
 2020-06-05 12:20:39 +02:00
phue
6d356cc918 CBE: don't load singularity module 
singularity is now installed from CentOS repos, the environment module will be removed
 2020-06-05 12:07:26 +02:00
Alexander Peltzer
adf90f3994
Merge pull request #146 from adrlar/master 
Adding config for ICR davros cluster
 2020-06-03 20:09:49 +02:00
Adrian
3e4db8c845 adding icr_davros to test 2020-06-03 14:55:58 +01:00
Alexander Peltzer
f877644059
Merge branch 'master' into master 2020-05-29 11:43:47 +02:00
Alexander Peltzer
0d5899eb26
Merge pull request #157 from nf-core/bi-docs 
Add BI to main readme.md
 2020-05-28 10:25:19 +02:00
Alexander Peltzer
dd56355c7c
Update bi.md 
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
0efa9f248e
Add BI to main readme.md 2020-05-28 10:12:50 +02:00
Alexander Peltzer
32ec230098
Merge pull request #156 from piotr-faba-ardigen/add_bi_config 
Add bi config
 2020-05-27 21:03:15 +02:00
Piotr Faba
f139750bf4 print the error message before throwing Exception 2020-05-27 19:14:43 +02:00
Piotr Faba
3c695ba71c test error display 2020-05-27 18:00:47 +02:00
Alexander Peltzer
6011419454
Merge pull request #154 from jfy133/master 
Update SHH nf-core/eager group-specific profiles
 2020-05-27 17:52:09 +02:00
Alexander Peltzer
27f3207cb9
Merge pull request #155 from piotr-faba-ardigen/add_bi_config 
Add BI internal config
 2020-05-27 17:49:41 +02:00
Piotr Faba
18d8edb046 add description and profile 2020-05-27 17:41:19 +02:00
Piotr Faba
f5e2a9f9f3 try without dummy.config: use relative path 2020-05-27 16:55:37 +02:00
Piotr Faba
3ad0003979 test without dummy config 2020-05-27 16:46:08 +02:00
Piotr Faba
1a9db371c3 remove echos 2020-05-27 16:43:32 +02:00
Piotr Faba
ac47d020cb debug: continue 2020-05-27 16:38:11 +02:00
Piotr Faba
ff5fdd097b debug 2020-05-27 16:35:55 +02:00
Piotr Faba
ab3070582e Fix paths to dummy.config 2020-05-27 16:32:19 +02:00
Piotr Faba
66f191a1cf declate NXF_GLOBAL_CONFIG in ci 2020-05-27 16:30:00 +02:00
Piotr Faba
2685275952 switch include off 2020-05-27 16:24:47 +02:00
Piotr Faba
c31b03108c retry without Exception 2020-05-27 16:22:56 +02:00
Piotr Faba
1354ae4063 add bi config 2020-05-27 16:19:15 +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
d070ed70d1
Update BWA settings based on feedback 2020-05-26 11:11:42 +02:00
James A. Fellows Yates
e31e781f29
Remove debugging 2020-05-26 11:07:06 +02:00
Harshil Patel
5981e5ec27
Merge pull request #153 from FriederikeHanssen/cfc_scratch 
Add scratch = true to avoid writing of intermediate file to /tmp
 2020-05-22 15:48:00 +01:00
James A. Fellows Yates
ff915ee504
Update shh.config 2020-05-12 12:47:59 +02:00
James A. Fellows Yates
8225e07819
Condensed base params and added names for debugging 2020-05-12 12:47:25 +02:00
James A. Fellows Yates
4814bac1c3
Fix sub-profiles 2020-05-12 12:42:42 +02:00
Phil Ewels
a7afd6a4e5
Merge pull request #152 from nf-core/jfy133-patch-1 
SHH doc typo fixes
 2020-05-07 12:03:45 +02:00
James A. Fellows Yates
2e3b577fb3
Typo fixes 
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 
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
cf6e697f0b
Further update aln based on modifications of EAGER defaults 2020-05-07 09:16:08 +02:00
James A. Fellows Yates
4d7e9ccf2f
Apply suggestions from review 2020-05-06 08:35:23 +02:00
James A. Fellows Yates
4804052b23
Update SHH nf-core/eager pipeline docs 2020-05-04 21:04:17 +02:00
James A. Fellows Yates
d42d7f4146
Sets the bwa aln parameter to 0.01 which is more commonly used at SHH 2020-05-04 21:02:16 +02:00