Redundans seems to not be reading input Fasta properly

Daniel Fernando Paulo

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Apr 15, 2019, 9:37:43 AM4/15/19

to Redundans

Hi all,

I am trying to run the reduction step of Redundans in a genome with 17,817 scafolds and 1.4 Gb size.

The problem is that Redundans seems to be reading only 30 scafolds and 48 Mb of it:

##################################################

[Sat Apr 13 15:25:47 2019] Reduction...

#file name genome size contigs heterozygous size [%] heterozygous contigs [%] identity [%] possible joins homozygous size [%] homozygous contigs [%]

contigs.fa 48147108 30 688346 1.43 20 66.67 95.681 0 47458762 98.57 10 33.33

Daniel Fernando Paulo

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Apr 15, 2019, 9:41:32 AM4/15/19

to Redundans

The interesting part is that when I grep -c ">" contigs.fa, it returns me the original 17,817 sequences.

Any Idea what is going wrong?

Thanks

Dani.

Leszek

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Apr 16, 2019, 5:48:53 AM4/16/19

to Daniel Fernando Paulo, Redundans

I've answered to previous email.

L.

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