git status and bus error on SSD – fix READ errors by recovering part of the file

SSD and Linux encryption may not be the best idea, especially without the TRIM (allow-discards) option (or never executed fstrim?). Nevertheless, this error may occur not only on an SSD device, but just where there is a corrupted file system or device.
In our case, the SSD has some read errors. Apparently, some files or some parts of files could not be read by the git command:

[myuser@dekstop kernel]# git status -v
Bus error 84/115708)

In the case of SSD bad reads, the only working solution is to find and overwrite the problem file(s) or remove the file(s) and recreate them. A more sophisticated solution is to dump the file with dd and skip errors option enabled to another location and then overwrite the old file with the new one. So only the corrupted area of the file will be lost, which in most cases is just one or two sectors, i.e. one or two 512 bytes of data.

STEP 1) Find the bad files with the find command.

Use find Linux command and read all the files with the cat Linux command, so a bad sector will output an input/output error on READ. On write errors won’t be generated, but the sector will be automatically moved to a healthy one (the bad sector is marked and never used more).

[myuser@dekstop kernel]#  find -type f -exec cat {} > /dev/null \;
cat: ./servers/logo_description.txt: Input/output error

If multiple files are found repeat the procedure with each file.

STEP 2) Copy the healthy portion of the file.

The easiest way to remove the error is just to delete the file (or overwrite it), but if the healthy portion of the file is desirable the dd utility may be used to recover it:
Keep on reading!

Upgrade self-hosted atlassian bitbucket 4.x to 5.x in CentOS 7

Here we are going to show you a real example of how we upgraded out Atlassian Bitbucket server from 4.14.4 (around April 2017 installation) with the latest version of Atlassian Bitbucket 5.14.0. We use

  1. using self-hosted instance of Bitbucket 4.14.4
  2. Linux distro – CentOS 7.
  3. MySQL server for back-end. So there is a jdbc mysql driver (which should be installed after the upgrade).
  4. NGINX is used as proxy for our main HTTPS url. So we have changed our default configuration in server (in sever.xml).
  5. Bitbucket is loaded from a URL/bitbucket – “”. So we have changed our default configuration (in sever.xml).

and you’ll see there are some pitfalls you can avoid if you follow our article. The latest git program in CentOS 7 is 1.8 and is not compatible with the new Atlassian Bitbucket 5.x, so we need to solve this problem before updating the server. Check out the official upgrade page here
Keep on reading!