Korištenje
Dostupne verzije i pripadajući moduli:
Verzija | Modul |
---|
0.23.1 | bioinfo/fastp |
Primjer skripte za opis poslova:
Code Block |
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language | bash |
---|
title | fastp.sge |
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|
#!/bin/bash
#$ -N fastp1
#$ -cwd
#$ -q a16.q
module load bioinfo/fastp
fastp -i R1.fq -o out.fq
|
Code Block |
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language | bash |
---|
title | Podnošenje posla |
---|
|
qsub fastp.sge |
Instalacija
Preduvjeti za instalaciju: libdeflate
i libisal
Instalacija:
- Compile je izveden sa intel/2019
- autoconf, automake, libtools, nasm (>=v2.11.01) i yasm (>=1.2.0) su potrebni za izgradnju isa-l
Code Block |
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language | bash |
---|
title | 1.Instalacija libisal |
---|
|
module load intel/2019
git clone https://github.com/intel/isa-l.git
cd isa-l
./autogen.sh
CC=icc FC=ifort ./configure --prefix=/home/usr/isa-l --libdir=/home/usr/isa-l/lib64
make
make install |
Code Block |
---|
language | bash |
---|
title | 2.Instalacija libdeflate |
---|
|
export PREFIX="$HOME/libdeflate"
git clone https://github.com/ebiggers/libdeflate.git
cd libdeflate
make
make install |
Code Block |
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language | bash |
---|
title | 3.Instalacija fastp |
---|
|
export LIBRARY_DIRS="/home/usr/isa-l/lib64/ /home/usr/libdeflate/lib"
git clone https://github.com/OpenGene/fastp.git
cd fastp
CXX=icpc make
make install |
.so fileovi od libisal i libdeflate su prebačeni u /apps/bioinfo/fastp/isa-l /apps/bioifo/libdeflate/, fastp bin je prebačen u /apps/bioinfo/fastp/0.23.1/