---
# System prepended metadata

title: PID-1110

---

The error message "parallel: Error: Output is incomplete. Cannot append to buffer file in /tmp. Is the disk full? parallel: Error: Change $TMPDIR with --tmpdir or use --compress. Warning: unable to close filehandle properly: No space left on device during global destruction." indicates that the disk is full and there is no space left to write output files [1]. This error can occur when running DeepVariant on a cluster or a shared system where the available disk space is limited.

To resolve this issue, you can try the following solutions:
1. Specify a Different Temporary Directory:
You can specify a different temporary directory where DeepVariant can store its temporary files using the `--tmpdir` option. For example:
    ```bash
    deepvariant --tmpdir /path/to/new/temp/dir ...
    ```
    Replace `/path/to/new/temp/dir` with the path to a directory that has sufficient disk space.
2. Free Up Disk Space:
You can free up disk space on the current `/tmp` directory by deleting unnecessary files or moving them to another location. You can use the df command to check the disk space usage on your system and identify which directories are consuming the most space:
    ```bash
    df -h
    ```
    Once you identify large or unnecessary files, you can remove them to free up space.
3. Increase Disk Space:
If you have control over the system's storage configuration, you can consider increasing the available disk space on the device where `/tmp ` is located.
4. Use Compression:
As mentioned in the error message, you can also use the `--compress` option when running DeepVariant to enable output compression, which may help reduce the disk space requirements. However, keep in mind that this may increase CPU usage during execution.
    ```bash
    deepvariant --compress ...
    ```
It is also recommended to check the available disk space before running DeepVariant and monitor the disk usage during the execution to avoid running out of disk space [1].