Invalid taxon labels causes division by zero during parse run about pargenes HOT 5 CLOSED

Hi Pierre,

after 6 months of procrastination, I fixed this. I don't think I can really detect wrong taxon names from ParGenes (raxml-ng would have to do it), but I replaced the very obscure error message with something less confusing ;-)

from pargenes.

Hi,
I tried every possibility of taxon labeling, but the same error appears.

[Error] <type 'exceptions.ZeroDivisionError'> integer division or modulo by zero
Writing report file in /home/lucaslima/Documentos/Output8/report.txt
When reporting the issue, please always send us this file.

May you please help me?

Thanks in advance.

The report.txt follows

report.txt

from pargenes.

Hi Lucas,

Thanks for your report!

The report file says that ParGenes cannot find a file that should be installed by the installation script (install.sh in the top directory). Did you run this script before running ParGenes? If yes, could you please run it again and send me its output?

I will add a more explicit error message for this kind of issue :-)

Benoit

from pargenes.

Hi Benoit,

Thanks a lot for you help. You were right. I had a unnoted problem with the install.sh.

When I execute it the follow error apears:

Could NOT find BISON (missing: BISON_EXECUTABLE)
-- Could NOT find FLEX (missing: FLEX_EXECUTABLE)
CMake Error at libs/pll-modules/libs/libpll/src/CMakeLists.txt:19 (BISON_TARGET):
Unknown CMake command "BISON_TARGET".

-- Configuring incomplete, errors occurred!
See also "/home/lucaslima/ParGenes/raxml-ng/build/CMakeFiles/CMakeOutput.log".
See also "/home/lucaslima/ParGenes/raxml-ng/build/CMakeFiles/CMakeError.log".

The log files in attachment.

Cheers,

CMakeError.log
CMakeOutput.log

from pargenes.

It looks like you have some missing dependencies (flex and bison). See raxml-ng instructions to install them: https://github.com/amkozlov/raxml-ng#installation-instructions

If it still does not work, the best would be to directly ask in our raxml-ng google group: https://groups.google.com/forum/#!forum/raxml

Cheers,
Benoit

from pargenes.