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ablab / spades

SPAdes Genome Assembler
http://ablab.github.io/spades/
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Finished abnormally, OS return value: 13 #1216

Closed dingjiahui123 closed 10 months ago

dingjiahui123 commented 10 months ago

Description of bug

Hi, When I try to run assembly, it shows this error:

14:21:52.436 153G / 153G ERROR General (mmapped_writer.hpp: 43) open(2) failed. Reason: Permission denied. Error code: 13 == Error == system call for: "['/lustre1/g/SPAdes/SPAdes-3.15.5-Linux/bin/spades-hammer', '/lustre1/g/data/metaspades/metaspades_R1_10_5_clean_nohuman/corrected/configs/config.info']" finished abnormally, OS return value: 13

Any advice would be appreciated. Thanks!

spades.log

spades.log

params.txt

params.txt

SPAdes version

3.15.5

Operating System

linux-4.18.0-425.3.1.el8.x86_64-x86_64

Python Version

3.11.5

Method of SPAdes installation

Linux binaries

No errors reported in spades.log

asl commented 10 months ago

The log clearly reads:

open(2) failed. Reason: Permission denied. Error code: 13

So, you need to ensure you're having all proper write permissions to scratch directory. Likely you'd need to ask your system administrator