Issue :

After uploading the file via File Manager, it says, File 100% Uploaded.
However, the file is not there when viewing the folder.

Fix :

One cause for this can be ClamAV Anti-Virus.
If you have ClamAV installed then un-install it and see if the problem persists.

Issue :

While trying to upload .swf files to the server , the following cPanel message appeared :
cpanel Virus Detected; File not Uploaded! (No such file or directory)
Scanning the file with Anti-Virus said that it is clean.

Fix :

Clamav might be causing the problem.
If you have root access to the server and are sure that the files are clean then do the following :

WHM > cPanel > Mange Plugins > uninstall clamavconnector

This should fix the issue!

Issue:

After installing clamav on a server, it was showing up the error ”/usr/sbin/clamd: error while loading shared libraries: libiconv.so.2: cannot open shared object file: No such file or directory” while running clamscan.

Fix:

Find the path of  libiconv.so

whereis libiconv.so
libiconv: /usr/local/lib/libiconv.so /usr/local/lib/libiconv.la

Then to check for the shared library dependencies of exim & clamd,

ldd /usr/sbin/exim & ldd /usr/sbin/clamd where I noticed that the library path ”/usr/local/lib” was not included.

For rectifying this,include the path /usr/local/lib in ld.so.conf, then run ldconfig which should create/refresh links to the shared libraries mentioned in ld.so.conf

And also add the following  entry

LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/local/lib in the exim startup file (this is not needed though , if the previous step works)

This should fix it!