Remove INPUT_DIR, OUTPUT_DIR, AVAIL_CPUs, LOG_FILE

Signed-off-by: Michael Barton <mail@michaelbarton.me.uk>
Rename Proc -> Task

Signed-off-by: Michael Barton <mail@michaelbarton.me.uk>
Remove OUTPUT_DIR from outputs

Signed-off-by: Michael Barton <mail@michaelbarton.me.uk>
Merge branch 'update/generic-container' into dev
Add FASTQ_FILE and FASTQ_FILE_LISTING

Signed-off-by: Michael Barton <mail@michaelbarton.me.uk>
Add PAIRED_FASTQ and PAIRED_FASTQ_FILE definitions

Resolves #2

Signed-off-by: Michael Barton <mail@michaelbarton.me.uk>
Absolute path for CONTIGS_FILE

Signed-off-by: Michael Barton <mail@michaelbarton.me.uk>
Merge branch 'update/assembler-container' into dev
Update benchmark container paths

Signed-off-by: Michael Barton <mail@michaelbarton.me.uk>
Merge branch 'update/benchmark-container' into dev
Add prefix to variables

Signed-off-by: Michael Barton <mail@michaelbarton.me.uk>
Merge branch 'update/add-prefix' into dev
Update headings for RFC

Signed-off-by: Michael Barton <mail@michaelbarton.me.uk>
Add additional RFC required sections

Signed-off-by: Michael Barton <mail@michaelbarton.me.uk>
Revise draft

Signed-off-by: Michael Barton <mail@michaelbarton.me.uk>
Merge branch 'update/convert-to-rfc-format' into dev