Shell Script Command-Line Options
|
Argument |
Required |
Description |
|---|---|---|
|
--runFolder |
Not required when running from FASTQ files. Required when running from BCL files. |
Full path to the sequencing system run folder that contains SampleSheet.csv, RunInfo.xml, RunParameters.xml, and the Data directory. |
|
--fastqFolder |
Not required when running BCL files. Required when running from FASTQ files. |
Full path to an existing FASTQ folder. |
|
--sampleSheet |
No |
Full path to the sample sheet file. If the sample sheet is named SampleSheet.csv and is located in the run or fastq folder (depending on how the analysis is initiated), this command is not required. |
|
--sampleIDs |
No |
The comma-delimited sample IDs that are processed by the run. For example, Sample_1,Sample_2. |
|
--version |
No |
Displays the version of the software, and then exits. |
