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Author SHA1 Message Date
sofstam
5bc6ed90bd Add hasta config for taxprofiler 2022-05-11 11:13:31 +02:00
Thiseas C. Lamnidis
65d07a3ead
Merge pull request #372 from nf-core/TCLamnidis-patch-1 
Update eva.config
 2022-05-06 15:53:03 +02:00
Thiseas C. Lamnidis
d09f5fc116
Update eva.config 
eigenstrat_snp_coverage also loads pandas
 2022-05-06 15:12:04 +02:00
James A. Fellows Yates
8fbfcfe256
Merge pull request #371 from jfy133/master 
Rename custom log file for EVA
 2022-05-06 14:02:03 +02:00
James A. Fellows Yates
95d18270e8
Update eva.config 2022-05-06 13:57:11 +02:00
Emil
e938f3606f Removes the new SGE clusterOptions for now 2022-05-05 14:09:45 +02:00
Harshil Patel
15c938d05b
Merge pull request #370 from drpatelh/google 
Update retry strategy for preemptible instances on GCP
 2022-05-05 11:22:36 +01:00
Harshil Patel
20c826fd50 Update retry strategy for preemptible instances on GCP 2022-05-05 11:10:05 +01:00
Emil
8b9744723c Fixes hasta java memory issues 2022-05-04 14:13:24 +02:00
Thiseas C. Lamnidis
a543a3ebc6
Merge pull request #369 from TCLamnidis/master 
missing bracket in eager eva.config
 2022-05-04 13:14:10 +02:00
Thiseas C. Lamnidis
209601f782
missing bracket 2022-05-04 13:08:13 +02:00
James A. Fellows Yates
c85342a9c9
Merge pull request #368 from TCLamnidis/master 
Update eva.config
 2022-05-04 12:32:04 +02:00
Thiseas C. Lamnidis
a42c4344ad
Exclude bionode 06 for software versions 2022-05-03 18:30:42 +02:00
Thiseas C. Lamnidis
08edd19d67
Merge pull request #1 from TCLamnidis/TCLamnidis-patch-1 2022-05-03 17:46:54 +02:00
Thiseas C. Lamnidis
79e227aa4e
Update eva.config 2022-05-03 16:42:21 +02:00
Thiseas C. Lamnidis
085726d081
Update eva.config 2022-05-03 16:36:05 +02:00
Thiseas C. Lamnidis
4592969613
memory for get_software_versions in MB. 2022-05-03 16:30:04 +02:00
Thiseas C. Lamnidis
79ad571319
Update eva.config 2022-05-03 16:25:48 +02:00
Thiseas C. Lamnidis
04226692fe
Update eva.config 2022-05-03 16:21:35 +02:00
Thiseas C. Lamnidis
57095fe79f
Update eva.config 
Set max heap size for java jobs in `get_software_versions`.
Limited OpenBLAS threading for python jobs that use numpy/pandas.
 2022-05-03 16:12:20 +02:00
James A. Fellows Yates
d1c1b467c1
Merge pull request #366 from jfy133/master 
Add more memory to get_software_versions for eva @ EAGER
 2022-05-02 14:54:26 +02:00
James A. Fellows Yates
b5d9b79377
Merge branch 'nf-core:master' into master 2022-05-02 13:59:18 +02:00
James A. Fellows Yates
bf658abc77
Update eva.config 2022-05-02 13:59:13 +02:00
Ramprasad Neethiraj
40c965c76b fix sentieon errors 2022-04-29 00:20:57 +02:00
James Fellows Yates
4885b672b1 Prettier 2022-04-25 11:46:32 +02:00
James A. Fellows Yates
b2d6fb6f5e
Merge pull request #365 from rajewski/master 
Cedars-Sinai HPC
 2022-04-25 10:44:33 +02:00
Alex Rajewski
d261b3df78
add cedars-sinai 2022-04-22 10:29:22 -07:00
Alex Rajewski
aa2c3e256b
add cedars-sinai 2022-04-22 10:27:50 -07:00
Alex Rajewski
c60d73b565
add Cedars-Sinai HPC 2022-04-22 10:26:32 -07:00
Alex Rajewski
7d6482c652
Merge pull request #1 from rajewski/patch-1 
usage notes
 2022-04-22 10:24:33 -07:00
Alex Rajewski
766eb450be
usage notes 2022-04-22 10:23:19 -07:00
Alex Rajewski
69d1a14894
basic Cedars-Sinai HPC config file 2022-04-22 10:17:13 -07:00
James A. Fellows Yates
c1425c6c01
Merge pull request #364 from jfy133/eva-update 
Update eager @ eva.config to allow retry on post-processing FASTQ
 2022-04-22 11:47:10 +02:00
Ramprasad Neethiraj
9da85209f2 change bcftools output format 2022-04-22 11:05:56 +02:00
Ramprasad Neethiraj
447b3ee05d add beforescript for sentieon 2022-04-22 11:03:09 +02:00
James A. Fellows Yates
a086878c0b
Update eva.config 2022-04-22 10:47:04 +02:00
Ramprasad Neethiraj
3e3e2be04b remove duplicate entries 2022-04-22 00:09:29 +02:00
Ramprasad Neethiraj
d39bec05dc fix typo 2022-04-19 13:21:51 +02:00
Ramprasad Neethiraj
32207a2402 update path so that the sentieon version is explicit 2022-04-19 11:42:05 +02:00
Ramprasad Neethiraj
6fad232232 sentieon env variable 2022-04-19 11:27:35 +02:00
Ramprasad Neethiraj
afe935c2d0 include stub profile 2022-04-15 15:27:41 +02:00
Maxime U. Garcia
e9d93d62e0
Merge pull request #362 from nf-core/praveenraj2018-patch-1 
Update: sentieon version
 2022-04-07 12:52:33 +02:00
Praveen Raj S
edaad1cd18
Update: sentieon version 
Sentieon version has been updated to 202112.02.
 2022-04-07 12:36:01 +02:00
James A. Fellows Yates
d49b21efdc
Merge pull request #361 from jfy133/master 
Re-add accidently removed BWA bionode exclusions EAGER @ EVA
 2022-03-31 14:11:54 +02:00
James A. Fellows Yates
44238471cf
Update eva.config 2022-03-31 13:12:50 +02:00
James A. Fellows Yates
f172cce8b2
Merge pull request #360 from jfy133/master 
Re-add bash bin specification for EVA
 2022-03-31 12:58:06 +02:00
James Fellows Yates
2277b541a3 Re-add bash bin specification 2022-03-31 11:06:53 +02:00
James A. Fellows Yates
7cad02d327
Merge pull request #359 from jfy133/fix-eva 
Remove -S /bin/bash in clusteroptions for EVA
 2022-03-29 13:51:41 +02:00
James A. Fellows Yates
8ad4ddac6a
Merge branch 'master' into fix-eva 2022-03-29 12:50:54 +02:00
James Fellows Yates
3d2a612b39 Remove setting of bash in clusterOotions 2022-03-29 12:48:37 +02:00