RepeatModeler nseg installation problem

Question

[Amaranta_Remedios]

Hi,

I am trying to install nseg in my computer so I can use RepeatModeler but this is not working. I have a folder called nseg in my computer with 7 files in it: genwin.c genwin.h lnfac.h makefile nmerge.c nseg.c runnseg When I typed make the result is:

....... 36 warnings and 11 errors generated

Any idea how to solve this ? Thanks

[Amaranta_Remedios]

a similar question was asked and never solved in A: Alternatives to RepeatModeler / nseg install fail

[Amaranta_Remedios]

also no response on GitHub https://github.com/rmhubley/RepeatModeler/issues/32

[96clbutler]

I also have the same problem - so frustrating as so little online documentation. Any luck getting this issue sorted?

[Jake Warner]

I think I have a hackaround working: https://github.com/ScientistJake/nseg_osx

[h.mon]

I can compile nseg on a Debian Linux with GCC version 8.3.0 - there are lots of warnings, but no errors.

Please tell which is your operating system and the compiler and its version. More important, use pastebin or some other similar forum to post the error messages and post the link here.

[Jake Warner]

Here's the errors:
https://pastebin.com/LfsaNdmF

All the errors relate to non-void functions.

Answer 1

[dmathog]

This one has been modified to build without warnings using gcc 8.3.1:

https://saf.bio.caltech.edu/pub/software/molbio/nseg_modified.tar.gz

Note that "without warnings" means with no C standard specified.
Adding "-std=c99" or "-std=gnu99" breaks it, but it will still compile cleanly with "-std=c89".

Use at your own peril!