Syntax (?) errors on perl 5.10.1

[mgalardini]

Hi,

on our cluster setup we are using perl version 5.10.1, which gives the following errors when running

roary

or

perl ~/PATH_TO_ROARY/roary

Type of arg 1 to values must be hash (not hash element) at [...]/perl5/lib/perl5/Bio/Roary/AnnotateGroups.pm line 106, near "} )"
BEGIN not safe after errors--compilation aborted at [...]/perl5/lib/perl5/Bio/Roary/AnnotateGroups.pm line 312.
Compilation failed in require at [...]/perl5/lib/perl5/Bio/Roary.pm line 15.
BEGIN failed--compilation aborted at [...]/perl5/lib/perl5/Bio/Roary.pm line 15.
Compilation failed in require at [...]/perl5/lib/perl5/Bio/Roary/CommandLine/Roary.pm line 8.
BEGIN failed--compilation aborted at [...]/perl5/lib/perl5/Bio/Roary/CommandLine/Roary.pm line 8.
Compilation failed in require at [...]/perl5/bin/roary line 12.
BEGIN failed--compilation aborted at [...]/perl5/bin/roary line 12.

Thanks a lot,
Marco

[mgalardini]

I've tested the attached fix with a handful of gff files from prokka, running the following command:

./roary -p 6 genomes/*.gff

and it worked just fine

Best,
Marco

[andrewjpage]

Thanks for the fix, I've merged it in.