trinity-software
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trinity-software [2015/03/20 15:28] – [Usage] aorth | trinity-software [2015/03/24 07:56] – joguya | ||
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===== Information ===== | ===== Information ===== | ||
- | * Version: v2.0.3 | + | * Version: v2.0.6 |
- | * Added: | + | * Added: |
* Link: https:// | * Link: https:// | ||
Line 13: | Line 13: | ||
< | < | ||
- | **Note:** Trinity creates millions of small files -- which causes problems on the HPC storage server -- so you must direct output from these jobs to /// | + | **Note:** Trinity creates millions of small files -- which causes problems on the HPC storage server -- so you must direct output from these jobs to /// |
+ | |||
+ | < | ||
+ | #SBATCH -p highmem | ||
+ | #SBATCH -J trinity | ||
+ | #SBATCH -n 10 | ||
+ | |||
+ | module load trinity/ | ||
+ | module load bowtie/ | ||
+ | module load samtools/ | ||
+ | |||
+ | # cd to working dir just in case | ||
+ | export WORKDIR=$SLURM_JOBID | ||
+ | cd $WORKDIR | ||
+ | |||
+ | # match CPUs to amount requested in SBATCH options! | ||
+ | Trinity --seqType fq --max_memory 10G --left fish_R1.fastq --right fish_R2.fastq --CPU 10 --output trinity-fish2</ | ||
===== Installation ====== | ===== Installation ====== | ||
Notes from the sysadmin during installation: | Notes from the sysadmin during installation: |
trinity-software.txt · Last modified: 2020/10/28 11:28 by aorth