From e741ecb7a7daad939164ed85c0f384feff70af56 Mon Sep 17 00:00:00 2001 From: "Thiseas C. Lamnidis" Date: Wed, 13 Oct 2021 13:04:41 +0200 Subject: [PATCH] Update eva.config --- conf/pipeline/eager/eva.config | 12 ++---------- 1 file changed, 2 insertions(+), 10 deletions(-) diff --git a/conf/pipeline/eager/eva.config b/conf/pipeline/eager/eva.config index 9d2a7e1..5f0eaae 100644 --- a/conf/pipeline/eager/eva.config +++ b/conf/pipeline/eager/eva.config @@ -475,8 +475,8 @@ profiles { 1240k { params { // Specific nf-core/configs params - config_profile_contact = 'James Fellows Yates (@jfy133)' - config_profile_description = 'nf-core/eager big-data EVA profile provided by nf-core/configs' + config_profile_contact = 'Thiseas C. Lamnidis (@TCLamnidis)' + config_profile_description = 'nf-core/eager 1240k data EVA profile provided by nf-core/configs' } executor { @@ -484,14 +484,6 @@ profiles { } process { - - beforeScript = 'export _JAVA_OPTIONS="-XX:ParallelGCThreads=1"' - - maxRetries = 2 - - // Solution for clusterOptions comes from here: https://github.com/nextflow-io/nextflow/issues/332 + personal toMega conversion - clusterOptions = { "-S /bin/bash -V -j y -o output.log -l h_vmem=${task.memory.toGiga()}G,virtual_free=${task.memory.toGiga()}G" } - // Increasing walltime for bwa to avoid unnecessary retries withName:bwa { time = { task.attempt == 3 ? 1440.h : task.attempt == 2 ? 72.h : 48.h }