don't show debug messages in node

Signed-off-by: Sébastien Boisvert <boisvert@anl.gov>
add sequence reader actor

Link: https://github.com/GeneAssembly/biosal/issues/44
Signed-off-by: Sébastien Boisvert <boisvert@anl.gov>
rename worker_thread to worker

Signed-off-by: Sébastien Boisvert <boisvert@anl.gov>
use the term worker instead of worker_thread

Signed-off-by: Sébastien Boisvert <boisvert@anl.gov>
add interface for input formats

Link: https://github.com/GeneAssembly/biosal/issues/53
Signed-off-by: Sébastien Boisvert <boisvert@anl.gov>
added a buffered reader

Link: https://github.com/GeneAssembly/biosal/issues/53
Signed-off-by: Sébastien Boisvert <boisvert@anl.gov>
add .fastq / .fq support

[seb@sal biosal]# wc -l ~/dropbox/GPIC.1424-1.1371.fastq
362454176 /home/seb/dropbox/GPIC.1424-1.1371.fastq
irb(main):001:0> 362454176/4
=> 90613544

[seb@sal biosal]# time make reader
mpiexec -n 2 ./test_reader -threads-per-node 13 -read ~/dropbox/GPIC.1424-1.1371.fastq
actor 0: asking actor 2 to count entries in /home/seb/dropbox/GPIC.1424-1.1371.fastq
...
actor 0: file has 90613544 items

real 0m45.612s
user 9m39.253s
sys 0m58.607s

Link: https://github.com/GeneAssembly/biosal/issues/53
Signed-off-by: Sébastien Boisvert <boisvert@anl.gov>
add some code in DNA sequence

Link: https://github.com/GeneAssembly/biosal/issues/53
Signed-off-by: Sébastien Boisvert <boisvert@anl.gov>