I have 5 Linux machines cluster. There are 3 data nodes and one master. At now about 50% hdfs storage is available on each data nodes. But I run a mapreduce job, It is failed with following error
2017-08-21 17:58:47,627 WARN org.apache.hadoop.hdfs.DFSClient: Error Recovery for blk_6835454799524976171_3615612 bad datanode[0] 10.11.1.42:50010
2017-08-21 17:58:47,628 WARN org.apache.hadoop.hdfs.DFSClient: Error Recovery for block blk_6835454799524976171_3615612 in pipeline 10.11.1.42:50010, 10.11.1.43:50010: bad datanode 10.11.1.42:50010
2017-08-21 17:58:51,785 ERROR org.apache.hadoop.mapred.Child: Error in syncLogs: java.io.IOException: No space left on device
While on each system df -h gives following information
Filesystem Size Used Avail Use% Mounted on
devtmpfs 5.9G 0 5.9G 0% /dev
tmpfs 5.9G 84K 5.9G 1% /dev/shm
tmpfs 5.9G 9.1M 5.9G 1% /run
tmpfs 5.9G 0 5.9G 0% /sys/fs/cgroup
/dev/mapper/centos-root 50G 6.8G 44G 14% /
/dev/sdb 1.8T 535G 1.2T 31% /mnt/11fd6fcc-1f87-4f1e-a53c-54cc7117759c
/dev/mapper/centos-home 412G 155G 59M 100% /home
/dev/sda1 494M 348M 147M 71% /boot
tmpfs 1.2G 16K 1.2G 1% /run/user/42
tmpfs 1.2G 0 1.2G 0% /run/user/1000
As clear from above that my sdb dicsk (SDD) is only 31% used but centos-home is 100%. While hadoop is using local file system in mapreduce job when there is enough HDFS available? Where is the problem? I have search at google and found many such problem but no one covers my situation.
syncLogs does not use HDFS, it writes to hadoop.log.dir so
if you're using MapReduce, look for the value of hadoop.log.dir in /etc/hadoop/conf/taskcontroller.cfg.
If you're using YARN, look for the value of yarn.nodemanager.log-dirs in the yarn-site.xml.
One of these should point you to where you're writing your logs. Once you figure out which filesystem has the problem, you can free space from there.
Another thing to remember is you could get "No space left on device" if you've exhausted your inodes on your disk. df -i would show this.
Please check how many inodes are used. If I undertand it right, if it is still the full disk, but all inodes has gone, the error would be still the same, "no space left".
Related
I was trying to copy a 1.5GiB file from a location to another and was warned that my disk space is full, so I proceeded to a verification using df -h, which gave the following output:
Filesystem Size Used Avail Use% Mounted on
devtmpfs 16G 0 16G 0% /dev
tmpfs 16G 114M 16G 1% /dev/shm
tmpfs 16G 2.0M 16G 1% /run
tmpfs 16G 0 16G 0% /sys/fs/cgroup
/dev/mapper/RHELCSB-Root 50G 11G 40G 21% /
/dev/nvme0n1p2 3.0G 436M 2.6G 15% /boot
/dev/nvme0n1p1 200M 17M 184M 9% /boot/efi
/dev/mapper/RHELCSB-Home 100G 100G 438M 100% /home
tmpfs 3.1G 88K 3.1G 1% /run/user/4204967
where /dev/mapper/RHELCSB-Home seemed to cause the issue. But when running sudo du -xsh /dev/mapper/RHELCSB-Home, I got the following result:
0 /dev/mapper/RHELCSB-Home
and same thing for /dev/ and /dev/mapper/. After researching this issue, I figured out that this might have been caused by undeleted log files in /var/log/, but the total size of files there is far from approaching the 100GiB. What could cause my disk space to be full?
Additional context: I was running a local postgresql database when this happened, but I can't see how this can relate to my issue as postgres log files are not taking that much space either.
The issue was solved by deleting podman container volumes in ~/.local/share/containers/
Closed. This question does not meet Stack Overflow guidelines. It is not currently accepting answers.
This question does not appear to be about a specific programming problem, a software algorithm, or software tools primarily used by programmers. If you believe the question would be on-topic on another Stack Exchange site, you can leave a comment to explain where the question may be able to be answered.
Closed last year.
Improve this question
I have a Linux system where the disk space shows as only 29Gb, but when I look at the partition with the parted - print command it shows as a 64Gb partition. I'm not sure if the remaining disk space is unallocated, mounted in other folders, stuck in "tmpfs" or how to add it to the primary partition. This is in Ubuntu 18.04 OS. I would like for the full 64 GB to be available at root. I appreciate any help!
When I run df -h, here are the results:
Filesystem Size Used Avail Use% Mounted on
udev 16G 0 16G 0% /dev
tmpfs 3.2G 1.2M 3.2G 1% /run
/dev/mapper/ubuntu--vg-ubuntu--lv 29G 25G 2.7G 91% /
tmpfs 16G 0 16G 0% /dev/shm
tmpfs 5.0M 0 5.0M 0% /run/lock
tmpfs 16G 0 16G 0% /sys/fs/cgroup
/dev/sda2 976M 81M 829M 9% /boot
/dev/sda1 511M 4.4M 507M 1% /boot/efi
tmpfs 3.2G 0 3.2G 0% /run/user/1000
Results of parted print command shows a 64GB partition:
Model: ATA MSH-64 (scsi)
Disk /dev/sda: 63.4GB
Sector size (logical/physical): 512B/512B
Partition Table: gpt
Disk Flags:
Number Start End Size File system Name Flags
1 1049kB 538MB 537MB fat32 boot, esp
2 538MB 1612MB 1074MB ext4
3 1612MB 63.3GB 61.7GB
Results of vgs command:
VG #PV #LV #SN Attr VSize VFree
ubuntu-vg 1 1 0 wz--n- <57.50g <28.75g
Results of the lvs command:
(talos-env) pradmin#pradmin:~$ sudo lvs
LV VG Attr LSize Pool Origin Data% Meta% Move Log Cpy%Sync Convert
ubuntu-lv ubuntu-vg -wi-ao---- 28.75g
Depending on the installation, the root partition might only use a part of the logical volume (LV).
Try the commands vgs and lvs to get information about your current setup. I assume that vgs shows about 30G free space. You can enlarge the root volume using lvresize. After this you need to adapt the file system. This depends on the file system type you are using. If you use extX then you might want to run resize2fs.
Edit based on the edited question:
Yes, everything can be done when the disk is mounted and in use.
BUT YOU NEED TO TAKE CARE ABOUT THE COMMANDS YOURSELF!!! A WRONG COMMAND MIGHT DESTROY YOUR SYSTEM.
PLEASE TAKE YOUR TIME TO MAKE YOURSELF COMFORTABLE WITH LVS BEFORE CHANGING THE SYSTEM.
There are many good tutorials which might help you, e.g.:
http://ryandoyle.net/posts/expanding-a-lvm-partition-to-fill-remaining-drive-space/
The guidance from Andreas proved helpful. I managed to resize the logical volume to the full size of the partition using the following commands and sequence.
Resources that I found helpful:
https://www.redhat.com/sysadmin/resize-lvm-simple
https://access.redhat.com/documentation/en-us/red_hat_enterprise_linux/6/html/storage_administration_guide/ext4grow
root:~# lvs
LV VG Attr LSize Pool Origin
Data% Meta% Move Log Cpy%Sync Convert
ubuntu-lv ubuntu-vg -wi-ao---- <57.50g
Here you can see that the logical volume doesn't fill the full partition size
root:~# vgs
VG #PV #LV #SN Attr VSize VFree
ubuntu-vg 1 1 0 wz--n- <57.50g <28.75g
Extend the logical volume to 100% of the free space, /dev/{VG FROM lvs CMD}/{LV FROM lvs CMD}
root:~# lvextend -l +100%FREE /dev/ubuntu-vg/ubuntu-lv
Size of logical volume ubuntu-vg/ubuntu-lv changed from 28.75 GiB (7360 extents) to <57.50 GiB (14719 extents).
Logical volume ubuntu-vg/ubuntu-lv successfully resized.
Checked disk space and saw that it hadn't changed yet
root:~# df
Filesystem 1K-blocks Used
Available Use% Mounted on
udev 16390292 0 16390292 0% /dev
tmpfs 3284628 1164 3283464 1% /run
/dev/mapper/ubuntu--vg-ubuntu--lv 29542388 25311328 2707348 91% /
tmpfs 16423128 0 16423128 0% /dev/shm
tmpfs 5120 0 5120 0% /run/lock
tmpfs 16423128 0 16423128 0% /sys/fs/cgroup
/dev/sda2 999320 82552 847956 9% /boot
/dev/sda1 523248 4492 518756 1% /boot/efi
tmpfs 3284624 0 3284624 0% /run/user/1000
Resize file system to full size of logical volume, use Filesystem name from df command above. Note this is an ext4 filesystem, you may have to use a different command for a different filesystem.
root:~# resize2fs /dev/mapper/ubuntu--vg-ubuntu--lv
resize2fs 1.44.1 (24-Mar-2018)
Filesystem at /dev/mapper/ubuntu--vg-ubuntu--lv is mounted on /; on-line
resizing required
old_desc_blocks = 4, new_desc_blocks = 8
The filesystem on /dev/mapper/ubuntu--vg-ubuntu--lv is now 15072256 (4k) blocks
long.
root:~# df
Filesystem 1K-blocks Used Available Use% Mounted on
udev 16390292 0 16390292 0% /dev
tmpfs 3284628 1164 3283464 1% /run
/dev/mapper/ubuntu--vg-ubuntu--lv 59211724 25319316 31128948 45% /
tmpfs 16423128 0 16423128 0% /dev/shm
tmpfs 5120 0 5120 0% /run/lock
tmpfs 16423128 0 16423128 0%
/sys/fs/cgroup
/dev/sda2 999320 82552 847956 9% /boot
/dev/sda1 523248 4492 518756 1% /boot/efi
tmpfs 3284624 0 3284624 0%
/run/user/1000
I used Cassandra to store my data. I use Centos.
The data seems always to be stored in the root partition, which is too small.
My file system partitions like
Filesystem Size Used Avail Use% Mounted on
/dev/mapper/centos-root 50G 25G 26G 49% /
devtmpfs 7.8G 0 7.8G 0% /dev
tmpfs 7.8G 0 7.8G 0% /dev/shm
tmpfs 7.8G 17M 7.8G 1% /run
tmpfs 7.8G 0 7.8G 0% /sys/fs/cgroup
/dev/sda2 494M 177M 318M 36% /boot
/dev/sda1 200M 9.8M 191M 5% /boot/efi
/dev/mapper/centos-home 873G 66G 807G 8% /home
tmpfs 1.6G 0 1.6G 0% /run/user/1001
Obviously the root partition (50 GB) is much smaller than one at home (873GB).
Is there a way that I change a setup to enforce data storage using the
partition "/dev/mapper/centos-home" ?
I need to use the command "sudo service cassandra start" to activate Cassandra.
If without sudo, my authority doesn't allow me to activate Cassandra.
Thanks!
Edit the $CASSANDRA_HOME/conf/cassandra.yaml file (sometimes it is
located under /etc/cassandra also, depending on how you install
Cassandra)
Update the following properties
(only available since Cassandra 3.x) hints_directory: /var/lib/cassandra/hints // put your own directory here
data_file_directories: //put a list of directories here
/var/lib/cassandra/data
commitlog_directory: /var/lib/cassandra/commitlog // put your own directory here
saved_caches_directory: /var/lib/cassandra/saved_caches // put your
own directory here
Just set a Fedora 22 system on VMWare with 60GB. When inputting the "df" command, the system displayed this:
Filesystem 1K-blocks Used Available Use% Mounted on
/dev/mapper/fedora-root 38440424 4140700 32324020 12% /
devtmpfs 2009804 0 2009804 0% /dev
tmpfs 2017796 92 2017704 1% /dev/shm
tmpfs 2017796 872 2016924 1% /run
tmpfs 2017796 0 2017796 0% /sys/fs/cgroup
tmpfs 2017796 532 2017264 1% /tmp
/dev/sda1 487652 79147 378809 18% /boot
/dev/mapper/fedora-home 18701036 49464 17678568 1% /home
What is the exact size of each 1K-blocks? Does the /dev/mapper/fedora-root contain the /dev/mapper/fedora-home?
I'm so confused with "df" command.
Thanks a lot.
You can see from the df output that /dev/mapper/fedora-home can currently be reached at /home which is its mount point. Because the mount point for /dev/mapper/fedora-root is at / farther up the directory tree, anything that /dev/mapper/fedora-root has in /home is not accessible by normal means until and unless /dev/mapper/fedora-home gets unmounted.
As David Schwartz noted, a 1K-block is a unit of one (binary) kilobyte, which is 1024 bytes. Because no one has bothered to change it since the time when it was important to performance, df still reports sizes in terms of the device's block size. That value does vary. There are still plenty of devices around that have a block size of 512 bytes. For output consistently in kilobytes, you can use df -k.
What is the exact size of each 1K-blocks?
1,024 bytes.
Does the /dev/mapper/fedora-root contains the /dev/mapper/fedora-home?
They're separate filesystems, that's why they appear on separate lines in the df output.
How to increase disk space of an instance without using EBS ? Root file system size is only showing 10 GB. Is there a way to create a bigger file system without EBS ?
Filesystem Size Used Avail Use% Mounted on
/dev/sda1 9.9G 3.3G 6.1G 35% /
tmpfs 874M 0 874M 0% /lib/init/rw
udev 874M 84K 874M 1% /dev
tmpfs 874M 0 874M 0% /dev/shm
/dev/sdb 335G 12G 307G 4% /mnt
As you can see in the output, a much bigger partition is mounted at /mnt. You can move some of the things on the root filesystem there by either remounting it at the appropriate location or add symlinks. There is no other way to add more diskspace if you don't want to resort to EBS or a network filesystem.