Segmentation fault while reading fastq files

[abshah]

Hi SOAPdenovo2 dev team,
I would like to report a strange issue in the initial stages of running SOAPdenovo2. The program exits with a segmentation fault and core dump.

The error looks like this

183578 Memory Access Error (Memory Dump Written)

My stdout looks like this :

Version 2.04: released on July 13th, 2012
Compile Jan 27 2015     11:50:30

********************
Pregraph
********************

Parameters: pregraph -s /data/idiv_schielzeth/Grasshoppers/Gsib_Green_Brown_HiSeqX_libs_2018/F18FTSEUHT0360_G.SbluR/raw_reads/G.sibiricusGreen/assembly/Gsib_GB_final_assembly/config_G.sibGB_half_paired.txt -K 43 -p 16 -R -o assembly_G.sibGB_half_assembly3

In /data/idiv_schielzeth/Grasshoppers/Gsib_Green_Brown_HiSeqX_libs_2018/F18FTSEUHT0360_G.SbluR/raw_reads/G.sibiricusGreen/assembly/Gsib_GB_final_assembly/config_G.sibGB_half_paired.txt, 1 lib(s), maximum read length 150, maximum name length 256.

16 thread(s) initialized.
Import reads from file:
 /data/idiv_schielzeth/Grasshoppers/Bielefeld/Gsib_GB_HiSeqX_final_satminer_run/subsampled/Gsib_GB_R1_half_sample.fastq
Import reads from file:
 /data/idiv_schielzeth/Grasshoppers/Bielefeld/Gsib_GB_HiSeqX_final_satminer_run/subsampled/Gsib_GB_R2_half_sample.fastq
--- 100000000th reads.
--- 200000000th reads.
--- 300000000th reads.

My config file looks like this

#maximal read length
max_rd_len=150
[LIB]
#average insert size
avg_ins=250
#if sequence needs to be reversed
reverse_seq=0
#in which part(s) the reads are used
asm_flags=3
#use only first 100 bps of each read
rd_len_cutoff=150
#in which order the reads are used while scaffolding
rank=1
#cutoff of pair number for a reliable connection (at least 3 for short insert size)
pair_num_cutoff=3
#minimum aligned length to contigs for a reliable read location (at least 32 for short insert size)
map_len=32
#a pair of fastq file, read 1 file should always be followed by read 2 file
q1=/data/idiv_schielzeth/Grasshoppers/Bielefeld/Gsib_GB_HiSeqX_final_satminer_run/subsampled/Gsib_GB_R1_half_sample.fastq
q2=/data/idiv_schielzeth/Grasshoppers/Bielefeld/Gsib_GB_HiSeqX_final_satminer_run/subsampled/Gsib_GB_R2_half_sample.fastq

[aquaskyline]

It's a running environment-related error. I don't have any clue about what happened.