Troubleshooting low disk space issues in the /var/log/ volume on NextSeq 1000/2000 and NovaSeq X/X Plus
Background
Linux Operating System (OS) file systems record system events and logs in the messages log file, located in the /var/log/ directory. Over time, these logs can accumulate and cause the messages file size to reach several gigabytes. As a result, this can cause the /dev/mapper/--log-log partition to completely fill up. This does not typically affect run performance, though it can present warnings and errors in the Linux OS if it is not addressed.
Figure 1: Low Disk Space on "log". The volume "log" has only 266.1 MB disk space remaining.
Important Note: The NextSeq 1000/2000 Control Coftware v1.5 implements a pre-run disk space check to ensure local Linux OS partition has sufficient space. This pre-run check will present a warning if any OS partition is over 70% full, though sequencing runs can proceed after this warning is acknowledged. If any partition reaches over 90% full, the pre-run check will prevent sequencing runs from starting and space must be cleared.
Troubleshooting Actions
If a warning presents that a partition is over the limit for the pre-run check, see the following instructions to identify the affected partition:
Minimize the Control Software and open a terminal in the Linux OS by selecting Applications > System Tools > Terminal.
Run the df -Th command in the terminal to check the available capacity on the available partitions.
For assistance with checking the Linux OS partitions and clearing out excess files, contact Illumina Technical Support.
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