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Only use this method if encounter issues using Transfer file function on Flow homepage, contact support@partek.com to obtain private key.

Introduction

The following instructions detail the use of SFTP (

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Secured File Transfer Protocol) to transfer data to and from your

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Partek Flow instance. SFTP offers significant performance and security enhancements over FTP for file transfers. It also enables the use of robust file syncing utilities, e.g. RSYNC, and is compatible with common file transfer programs such as FileZilla and WinSCP.

To transfer files with SFTP, you will need to have your Partek Flow:

Your Partek Flow server name. For example

• Server Name. Example: myname.partek.com

Your login id. For example

• Username. Example: flowloginname

• Your password

 - OR -

Your private
• Private authentication key

This information should have been e-mailed to you from the Partek licensing team. If you lose this information, contact Partek support and we can reset your password or issue a new will resend your authentication key . For the initial roll-out of SFTP, we offer access via both password and private key. We highly recommend using only your private key to connect and ask us to disable password-based access. The reason is key-based access is much more secure and easier to use as there is no password to remember.

 If you opt to keep using password based authentication, you can change your SFTP account password after logging in by using the passwd program. Note this does not change your Partek Flow login password. These are two separate account spaces and one does not affect the other.

SFTP command line usage

Importing your private authentication key

You will receive a file called id_rsa via email. Download this file, note where you downloaded it to, then use ssh-add to import the key. If you logout or reboot your computer, you will need to re-run the commands below. After key import, you will not be asked a password when transferring files to your Partek Flow server.

$ cd directory/with/key

$ chmod 600 id_rsa

$ ssh-add id_rsa

Change your password

If you prefer to use a password then please change the default one emailed to you as soon as you can.

$ ssh flowloginname@myname.partek.com

$ passwd

Copying files and folders between your Partek Flow server and local computer

Uploading data to us

$ scp -r local_folder flowloginname@myname.partek.com:~/remote_folder

Downloading data from the Partek Flow server

$ scp -r flowloginname@myname.partek.com:~/remote_folder local_folder

SCP is useful for sending one file or folder at a time. If copying a folder, the “-r” option tells SCP to copy all files and folders recursively in that folder.

RSYNC usage

RSYNC is useful when resuming a failed transfer. Instead of re-uploading or downloading what has already been transferred, RSYNC will copy only what it needs.

$ rsync -avr --progress ./local_folder/ flowloginname@myname.partek.com:~/remote_folder/

With rsync, don't forget the trailing '/' on directory names.

to you.

SFTP with WinSCP

WinSCP is an open source, free SFTP client for Windows. Its main function is file transfer between a local and a remote computer. 

Downloading WinSCP

To download WinSCP, visit WinSCP's official site: https://winscp.net/eng/download.php On the WinSCP page you may need to scroll a bit down, to reach the green button Download WinSCP.

Connecting to your Partek server with WinSCP

Download and install WinSCP on your local computer and then launch the program.

• On the Login page click on the New Site icon.

• Type in the Host Name, which is the same as the web address that you use to access your instance of Partek Flow 

The web address for your instance of Partek Flow has been sent to you by Partek's Licensing team. In this example, the web address is ilukic5i.partek.com.

• Type in the User name, that has also been sent to you (and is the same user name that you use to log on to Partek Flow). In this example, the web address is lukici.
  
  

• To proceed click on the Advanced... button
• Then select the Authentication in the SSH section of the Advanced Site Settings dialog
  
  

• Select the ... button (under Private key file) to browse for the id_rsa file.

The file has been sent to you by Partek's licensing team attached to the same email that gave you your URL and username.

• If you do not see it in the Select private key file browser, switch to All Files (*.*)

• Click Open

WinSCP will ask you to confirm file format conversion

• Click OK.

WinSCP will create a file in .ppk format.

• Click Save to save the converted key file, id_rsa.ppk, to a secure location on your local computer.
• Click OK again to confirm the change.

Your private key has been saved in .ppk format and added to WinSCP

• Click OK to proceed

• Click Save to save the new WinSCP settings.

This will open the Save session as site dialog. You can accept the default name (in this example lukici@ilukic5i.partek.com) or add a custom name. The name that you specify here will appear in the left panel of the Login dialog.

• Once you have made your edits, click OK.

• On the Login page, select your newly created site (in this example: lukici@ilukic5i.partek.com) and click the Login button.

The first time you connect, a warning message will appear, asking you whether you want to connect to an unknown server.

• Click Yes to proceed.

The progress towards establishing a connection will be displayed in a dialog. This process is automatic and you do not need to do anything.

The WinSCP interface includes is split into two panels. The panel on the left shows the directory structure of your local computer and the panel on the right shows the directory structure of your Partek Flow file server. 

To transfer a file, just drag and drop the file from one panel to the other. The progress of your transfer will be shown on the screen.

SFTP with FileZilla

FileZilla is a graphical file transfer tool that runs on Windows, OSX, and Linux. It is great when needing to do bulk transfers as all transfers are added to a queue and processed in the background. It is possible to browse your files on the Partek Flow server while transfers are active. This is also the best solution when you are not on a computer with command line access or you are uncomfortable with command line operations.

Downloading FileZilla

We recommend downloading the FileZilla install packages from us. They are also available from download aggregator sites (e.g. CNET, download.com, sourceforge) but these sites have been known to bundle adware and other unwanted software products into the downloads they provide, so avoid them.

Mac OSX:

http://

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packages.partek.com/

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bin/filezilla/fz-osx.app.tar.bz2

Windows 32-bit:

http://

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packages.partek.com/

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bin/filezilla/fz-win32.exe

Windows 64-bit:

       http://

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packages.partek.com/

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bin/filezilla/fz-win64.exe 

Linux (Please use your distribution's package manager to install Filezilla):

Ubuntu:

$ sudo apt-get update

$ sudo apt-get install filezilla

RedHat, see the following guide:

http://juventusitprofessional.blogspot.com/2013/09/linux-install-filezilla-on-centos-or.html

OpenSuse, see:

https://software.opensuse.org/package/filezilla

Connecting to your Partek server with FileZilla

After starting FileZilla, click on the Site Manager icon located at the top left corner of the FileZilla window.

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Click on the New Site button on the left of the popup dialog.

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Type in a name for the connection. Example: “Partek SFTP”.

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The connection details to the right need to be changed to reflect the information you received via email. The default settings will NOT work.

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• Set Host: to your partek server name

• Leave Port: blank

• Change Protocol: to SFTP - SSH File Transfer Protocol

• Change User: to your Partek Flow login name

• If you just want to use a password to connect, set Login Type: to Normal and input your password

If you will use key-based authentication, change

• Change Logon Type: to Key File and select the key file received via email.

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When selecting your key file, change the file selection from its default of PPK files to All files. Otherwise you key file will not be visible in the file browser.

After selecting your key file, click the Connect button.

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Click the checkbox to always trust this host and click OK. Once connected, you can begin to browse and transfer files. The files and folders to the left are on your computer, the ones on the right are on the Flow server.

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When you need to reconnect to your server, run FileZilla and click the down arrow next to the Site Manager icon, then select Partek SFTP.

SFTP command line usage

Importing your private authentication key

You will receive a file called id_rsa via email. Download this file, note where you downloaded it to, then use ssh-add to import the key. If you logout or reboot your computer, you will need to re-run the commands below. After key import, you will not be asked a password when transferring files to your Partek Flow server.

$ cd directory/with/key

$ chmod 600 id_rsa

$ eval $(ssh-agent)

$ ssh-add id_rsa

Copying files and folders between your Partek Flow server and local computer

RSYNC usage

RSYNC is useful when resuming a failed transfer. Instead of re-uploading or downloading what has already been transferred, RSYNC will copy only what it needs.

The command below will sync the folder "local_folder" with the "remote_folder" on Partek's servers. To transfer in the other direction, reverse the last two parameters.

$ rsync -avr --progress ./local_folder/ flowloginname@myname.partek.com:~/remote_folder/

With rsync, don't forget the trailing '/' on directory names.

Before moving the files, we strongly advise you to use FileZilla to explore the directory structure of the Partek server and then create a new directory to transfer the files to.

Points of Caution

• When you delete files from the Partek Flow server they are gone and can not be recovered.

• Please use Partek Flow to delete projects and results. Manually removing data using SFTP could break your server.

• Wait until ALL input data for a particular project has been transferred to the Partek Flow server before importing data via Partek Flow. If you try to import samples while the upload is occurring the import job will crash.

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• When upload raw data to Partek hosted Flow server, we recommend to a create subfolder for each experiment at the same level of "FlowData" folder or inside "FlowData" folder.