HuaParallel2019

Parallel fastq filtering
C99 - GCC

`

		                Serial Implementation

Compile: 
gcc -o serial serial_implementation.c Entity/fastq.h Helpers/FastqHelper.h Helpers/FastqHelper.c Helpers/FileHelper.h Helpers/FileHelper.c

Excecute: 
./serial <input.fastq> <output.fastq>

`

		                 MPI Implementation

Compile:
mpicc -o par_mpi mpi_implementation.c Entity/fastq.h Helpers/FastqHelper.h Helpers/FastqHelper.c Helpers/FileHelper.h Helpers/FileHelper.c

Excecute:
mpirun -np "nodes" -hostfile "hostfile" par_mpi <input.fastq> <output.fastq>

`

		                OpenMP Implementation

Compile:
gcc -o par_omp openmp_implementation.c Entity/fastq.h Helpers/FastqHelper.h Helpers/FastqHelper.c Helpers/FileHelper.h Helpers/FileHelper.c -fopenmp


Excecute:
./par_omp <input.fastq> <output.fastq> <threads_count>