From 0faf86fa40d019f8cccf8b58b080fe2450ab0cdc Mon Sep 17 00:00:00 2001
From: cfmin <1163105507@qq.com>
Date: Tue, 22 Apr 2025 17:04:56 +0800
Subject: [PATCH] Add templates app velvet-1.2.10

---
 .../velvet/1.2.10/velvet.arm.kgcc.hmpi.config | 45 +++++++++++++++++++
 1 file changed, 45 insertions(+)
 create mode 100644 templates/velvet/1.2.10/velvet.arm.kgcc.hmpi.config

diff --git a/templates/velvet/1.2.10/velvet.arm.kgcc.hmpi.config b/templates/velvet/1.2.10/velvet.arm.kgcc.hmpi.config
new file mode 100644
index 0000000..c7405b7
--- /dev/null
+++ b/templates/velvet/1.2.10/velvet.arm.kgcc.hmpi.config
@@ -0,0 +1,45 @@
+[SERVER]
+11.11.11.11
+
+[DOWNLOAD]
+velvet/1.2.10 ${JARVIS_PROXY}/dzerbino/velvet/archive/refs/tags/v1.2.10.tar.gz velvet-1.2.10.tgz
+
+[DEPENDENCY]
+module purge
+module use ./software/modulefiles
+./jarvis -install kgcc/10.3.1 com
+module load kgcc/10.3.1
+./jarvis -install hmpi/2.4.2 gcc
+module load hmpi/2.4.2
+
+tar -zxvf ${JARVIS_DOWNLOAD}/velvet-1.2.10.tgz -C ${JARVIS_TMP_DOWNLOAD}
+mkdir -p ${JARVIS_ROOT}/software/apps/velvet/bin
+
+[ENV]
+module purge
+module use ./software/modulefiles
+module load kgcc/10.3.1
+module load hmpi/2.4.2
+export OMP_NUM_THREADS=96
+export OMP_THREAD_LIMIT=95
+
+[APP]
+app_name = velvet
+build_dir = ${JARVIS_TMP_DOWNLOAD}/velvet-1.2.10
+binary_dir = ${JARVIS_ROOT}/software/apps/velvet/bin
+case_dir = ${JARVIS_TMP_DOWNLOAD}/velvet-1.2.10
+
+[BUILD]
+sed -ri 's/\-m64/\-mabi=lp64/g' Makefile
+sed -ri 's/CC = gcc/CC = mpicc/g' Makefile
+sed -ri 's/CC = gcc/CC = mpicc/g' contrib/MetaVelvet-v0.3.1/Makefile
+make 'GATEGORIES=10' 'MAXKMERLENGTH=57' 'LONGSEQUENCES=1' 'OPENMP=1' 'BUNDLEDZLIB=1'
+cp -ar velveth velvetg ${JARVIS_ROOT}/software/apps/velvet/bin
+mkdir -p ${JARVIS_TMP_DOWNLOAD}/velvet-1.2.10/output
+
+[CLEAN]
+
+[RUN]
+run = ${JARVIS_ROOT}/software/apps/velvet/bin/velveth output 31 -shortPaired -fastq.gz tests/read1.fq.gz -shortPaired -fastq.gz tests/read2.fq.gz &&
+binary = velvetg output -min_contig_lgth 100 -cov_cutoff 9
+nodes = 1
-- 
Gitee