Error in graphShort session
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Dear developers,
During the "gsat graphShort -conf example.conf" session, I encountered an issue where gsat failed to determine the offset and requested manual specification before restarting. Additionally, an error message was displayed, which read "== Error == system call for: "['/home/zzy/miniconda3/envs/rna/share/spades-3.13.0-0/bin/spades-hammer', '/run/media/zzy/Elements/kiwifruit_genome/white/gsat/spades/corrected/configs/config.info']" finished abnormally, err code: 255."
I am seeking assistance in understanding the cause of this error. I have attached the log file for reference.
Looking forward to your reply.
spades.log
Hello,
It seems that this error was reported by the spades software and could be caused by problems in the sequencing reads you used.
You can try to conduct a quality control of the Illumina reads before they are used for GSAT.
Hello,
It seems that this error was reported by the spades software and could be caused by problems in the sequencing reads you used.
You can try to conduct a quality control of the Illumina reads before they are used for GSAT.
Thank you for your answer, I will try to polish that.