Error indexing - Segmentation fault (core dumped)

[F. Requena]

Hello!

I'm having a problem when I try to index a file (bgzip compressed):

The first error message that I got:

Segmentation fault (core dumped)

Then, I started to do changes with the same file to see what is going on and after many attempts:

- Less 100 rows - Everything OK / indexed correctly

- 100 rows - Everything OK / indexed correctly

- More 100 rows - Error message: Segmentation fault (core dumped)

This is the command:

giggle index -i './chromatin_state/just_try.bed.gz' -o ./index_chromm

I'm running Giggle in my Ubuntu 16.04 laptop, my giggle version is 0.6.3.

If you need anything else, just let me know.

Thank you in advance!

Francisco Requena

[Ryan Layer]

Try sorting the files then adding the options "-s -f" to your index command.

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[F. Requena]

Hello Ryan,

I spotted the problem: the separator of the bed file was a ' ' and not a '/t' (tab-separator).

Thank you for your fast answer and availability.

Francisco Requena

[Ryan Layer]

good luck and let me know if you run into any other issues

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