reading too few reads? Not supporting gz format?!

[bitcometz]

Hello,
I try to run SOAPdenovo with around 10g data, however, It seems cannot properly reads the raw reads:

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Pregraph

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Parameters: pregraph -s config_file -d 1 -p 24 -K 37 -R -o s_1

In config_file, 1 lib(s), maximum read length 150, maximum name length 256.

24 thread(s) initialized.
Import reads from file:
path/s_1_HHMYJDSXX_L3_1.fq.gz
Import reads from file:
path/s_1_HHMYJDSXX_L3_2.fq.gz
Time spent on hashing reads: 1s, 356 read(s) processed.
LIB(s) information:
[LIB] 0, avg_ins 350, reverse 0.
37344 node(s) allocated, 39516 kmer(s) in reads, 39516 kmer(s) processed.
done hashing nodes
35172 kmer(s) removed.
Time spent on delowcvgNode: 0s.
2098 linear node(s) marked.
Time spent on marking linear nodes: 0s.
Time spent on pre-graph construction: 1s.

Does it not support the gz format? I try to unzip the fq and it works well again.

Thanks!

[Ruibang Luo]

mostly likely due to a version problem of the gzip library you are linking to.

[NiuNiuguohao]

I met the same problem. Could you please tell me how did you fix it? Thanks!

[HZAU-Wss]

I had the same problem. 2 gigabytes of clean date can be run with ”spades“, but “soap” can only read 20,000 reads.