To apply the patch using SSH in Magento

Step 1: Place patches files into Magento Root directory,Upload your files into Magento root directory.
It is important to place patch files directly into Magento root directory and execute it also directly in Magento root directory.

$ ls -1
PATCH_SUPEE-7405_CE_1.9.2.2_v1-2016-01-20-04-35-33.sh
app
cron.php
downloader
errors
favicon.ico
index.php
js
lib
mage
media
pkginfo
robots.txt
shell
skin
var


Step 2:Run the patches
$ bash ./PATCH_SUPEE-7405_CE_1.9.2.2_v1-2016-01-20-04-35-33.sh
Checking if patch can be applied/reverted successfully...
Patch was applied/reverted successfully.

Note: If you get this error:-

Hunk #1 FAILED at 695 (different line endings).
1 out of 1 hunk FAILED
checking file app/code/core/Mage/Api/Model/Server/Adapter/Soap.php
Hunk #1 FAILED at 208 (different line endings).


Run this comand on your terminal

find . -type f -exec dos2unix {} \;

This will recursively look for files from the current directory and invoke dos2unix command on them

and then run the patches
$ bash ./PATCH_SUPEE-6482_EE_1.12.x_to_1.13.0.x_v2-2015-08-04-05-03-40.sh
Checking if patch can be applied/reverted successfully...
Patch was applied/reverted successfully