If your samples are in different subdirectories, you must include the path in for your file name. You can use either a relative path or an absolute path.

Relative paths

You can use a path relative to the location of the text file you are using to create the sample table. For example in Figure 12, the text file is located in a directory called "download" while the files are in a subdirectory called MyData, then the filenames must include the path /MyData/. An example is shown below:

/MyData/NA1031_S25_L007_R1_001.fastq.gz

Absolute path

You can use the full path to the file based on your Partek Flow server.  You must include the paths starting from the Partek Flow home directory (Figure 13, red box). For typical installations, the path begins with /home/flow/FlowData/ and so the filenames to include in the text file may look like this:

/home/flow/FlowData/download/MyData/NA1031_S25_L007_R1_001.fastq.gz