BTW, [1] here was: https://github.com/sanger-pathogens/Roary/issues/196
Cheers Sascha > On 17 Dec 2016, at 23:28, Sascha Steinbiss <sa...@debian.org> wrote: > > Hi all, > > thanks for checking these. > >>> roary >> >> Build, however when trying to simulate the test suite via >> >> cd t/data/genbank_gbff >> roary -f out *.gff >> >> Please cite Roary if you use any of the results it produces: >> Andrew J. Page, Carla A. Cummins, Martin Hunt, Vanessa K. Wong, Sandra >> Reuter, Matthew T. G. Holden, Maria Fookes, Daniel Falush, Jacqueline A. >> Keane, Julian Parkhill, >> "Roary: Rapid large-scale prokaryote pan genome analysis", >> Bioinformatics, 2015 Nov 15;31(22):3691-3693 >> doi: http://doi.org/10.1093/bioinformatics/btv421 >> Pubmed: 26198102 >> >> Use of uninitialized value in require at >> /usr/lib/x86_64-linux-gnu/perl/5.24/Encode.pm line 61. >> >> >> This does not look good even if it does not look related to BioPerl. > > In fact, it doesn’t look related to Roary either. It’s apparently a missing > Encode/ConfigLocal.pm in the coded provided by libencode-perl, but not a > fatal issue here as it doesn’t seem to impact the result or performance of > Roary. It’s been reported before [1] and I will let upstream know that the > warning is back. Not a blocker AFAICS. > > Cheers > Sascha