Commit 689e112b authored by Valentina Galata's avatar Valentina Galata
Browse files

updated GDB config files

parent b6dfa4c7
......@@ -86,7 +86,7 @@ assemblers:
# lr: ["flye"]
# hy: ["metaspadeshybrid", "operams", "metaspadeshybridmetatracon", "operamsmetatracon"]
sr: ["megahit", "metaspades"]
lr: ["flye"]
lr: ["flye", "wtdbg2"]
hy: ["metaspadeshybrid", "operams"]
# https://github.com/fenderglass/Flye
......@@ -94,6 +94,12 @@ flye:
threads: 10
genome_size: "1g"
# https://github.com/ruanjue/wtdbg2
wtdbg2:
threads: 10
bin: "/scratch/users/sbusi/tools/wtdbg2/"
genome_size: "1g"
# https://github.com/ablab/spades
metaspades:
threads: 10
......
......@@ -5,7 +5,7 @@
#SBATCH -N 1
#SBATCH -n 1
#SBATCH -c 1
#SBATCH --time=0-06:00:00
#SBATCH --time=2-00:00:00
#SBATCH -p batch
#SBATCH --qos=qos-batch
......
......@@ -36,6 +36,14 @@ assembly_lr_flye:
n: 1
explicit: ""
assembly_lr_wtdbg2:
time: "00-8:00:00"
partition: "bigmem"
qos: "qos-bigmem"
nodes: 1
n: 1
explicit: ""
assembly_sr_megahit:
time: "01-4:00:00"
partition: "bigmem"
......
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