Use of uninitialized value in require at (eval ..) line 1.

[sanger-pathogens]

Use of uninitialized value in require at (eval ..) line 1.

[andrewjpage]

Fixed in 3.5.3

[xiaohai90]

Dear Andrew,

When I used the roary-3.6.1, command: roary -e --mafft -p 8 *.gff
I got the error: "Use of uninitialized value in require at (eval 1157) line 1.".
I checked the output files and compared with those listed on "https://sanger-pathogens.github.io/Roary/", and they were all generated but one "accessory_binary_genes.fa.newik".
There is a empty file named "accessory_binary_genes.fa" in my result.

Could you please help me with this issue?

Best Regards!
xiaohai

[rbutleriii]

Hello, I also got a similar error, but roary seems to have finished ok.

roary -p 30 -f 85/ -e -n -i 85 *.gff ##returns "Use of uninitialized value in require at (eval 61054) line 1."

Only happens if I add mafft option. Roary version 3.6.2.

[andrewjpage]

It is a warning rather than an error so probably safe to ignore. Usually
upgrading your perl modules makes it go away.
Andrew

On 17 July 2016 at 20:41, Robert Butler [email protected] wrote:

Hello, I also got a similar error, but roary seems to have finished ok.

roary -p 30 -f 85/ -e -n -i 85 *.gff ##returns "Use of uninitialized value
in require at (eval 61054) line 1."

Only happens if I add mafft option. Roary version 3.6.2.

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[rbutleriii]

Thanks for the help.