[ENSCORESW-816] Patch attempting to fix reused contigs being destroyed as duplicates. Also formatting changes.
[ENSCORESW-816] Patch attempting to fix reused contigs being destroyed as duplicates. Also formatting changes.

james-monkeyshines/ensembl,muffato/ensembl,mjg17/ensembl,at7/ensembl,danstaines/ensembl,mjg17/ensembl,james-monkeyshines/ensembl,mjg17/ensembl,james-monkeyshines/ensembl,Ensembl/ensembl,danstaines/ensembl,at7/ensembl,at7/ensembl,mjg17/ensembl,james-monkeyshines/ensembl,danstaines/ensembl,muffato/ensembl,Ensembl/ensembl,muffato/ensembl,Ensembl/ensembl,muffato/ensembl,at7/ensembl,Ensembl/ensembl