GenomeLinkMatrix error

[shendurelab]

GenomeLinkMatrix error

[fbemm]

Any ideas why this is happening?

[okokookk]

In my opinion, because the number is outside the capacity that int64 can accommodate.
So you can modify the following file and re-compile.

1121 line in the GenomeLinkeMatrix.cc
int64_t N_links_same_cluster = 0, N_links_diff_cluster = 0;
'>'
unsigned long long N_links_same_cluster = 0, N_links_diff_cluster = 0;

I'm not sure if this is correct. but, if you change this way, it will run without this problems.

[fbemm]

Works but I think its causing downstream issues. During ordering (Filling 9 clusters with Hi-C data from SAM file) no links are pulled out from the alignment files. Basically no dots show up and then also none of the contigs within a cluster are ordered. Anyone seen this before? Might be unrelated ...

[ghuryejay]

Did anyone figure this out?

[yeswzc]

I met same problem too. Is there a certain solution ?

[Lordhooze]

any solutions？

[jazberna1]

Hi,

The solution mentioned above worked for me at least.

Jorge