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[<Click here>|PS:ProteoSAFe Account Registration] if you do not have a ProteoSAFe account and need to create a new account.

Most users prefer to use FTP to upload their files to ProteoSAFe, particularly if the files are large. Although the FTP process is slightly more involved than uploading through the ProteoSAFe web interface, it is the preferred method to ensure stable and complete uploads. It also benefits from the power of FTP to easily rename and reorganize files and folders, allowing you to create a more efficient file structure within your ProteoSAFe account's personal data space.

However, this method is only available for the official CCMS ProteoSAFe servers, for which separate FTP servers have been installed and linked to the ProteoSAFe user database. Also, this method requires the use of a registered ProteoSAFe user account - "guest" users cannot use FTP to upload their files.

To connect to your ProteoSAFe user account via FTP, simply log on to the appropriate FTP server, using the same username and password as your ProteoSAFe web account. See below for which FTP server host name to use, depending on your objective. Both official FTP servers are connected to the same user database, so your username and password will be the same for both. However, be sure to use the correct one, since they are connected to different storage servers - if you upload files to one, you will not be able to see them in the other\!

|| ProteoSAFe/GNPS data analysis workflows || MassIVE dataset submission ||
| _*ccms-ftp01.ucsd.edu*_ | _*massive.ucsd.edu*_ |
| *{_}ccms-ftp01.ucsd.edu{_}* | *{_}massive.ucsd.edu{_}* |

To do this, you will need to use your preferred FTP client program. There are many good free FTP clients, but a few of the more popular ones that have been tested with ProteoSAFe include:
[CoffeeCup Free FTP|http://www.coffeecup.com/free-ftp/]


Most FTP client programs use a similar interface. There is usually some sort of "Site Manager" or "Server Manager", allowing you to set up and store your connection information for a particular FTP server, and then re-connect to that server easily. For example, in FileZilla: