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CLC Server Command Line Tools

Command Line Tools for the CLC Server


CLC Command Line Tools is a client interface for CLC Server products, allowing Server-based analyses, workflows, import and export, and various data operations such as moving, renaming and deleting data, to be run via the command line or included in scripts.

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CLC Command Line Tools is a counter-part to the CLC Workbenches, which act as graphical clients for CLC Servers.

Latest improvements when run as a client of CLC Genomics Server
Latest improvements when run as a client of CLC Drug Discover Server

Some general pointers about the graphical Workbench clients and the CLC Command Line Tools client:

  • The command-line tool is ideal for scripting pipelines of data analyses. By encapsulating the instructions to the server in a script, you can run all your data sets through the same pipeline of analyses, making this a consistent and effective framework for production settings. The Workbench can be very useful as a companion to the CLC Command Line tools, where the Workbench can be useful for exploring the analyses available, running initial pilot tests, determining appropriate parameter settings, deciding on quality control steps and so on. The Workbench is also ideal for graphical investigation of analysis results. After an analysis pipeline has been finalized, a series of CLC Command Line Tool calls making up the analysis pipeline can be defined in a script.
  • Workflows installed on CLC Servers can be launched via CLC Command Line Tool calls. Defining Workflows should be done using the Workflow editor within a CLC Workbench.
  • Visualization and interpretation of results would usually be done with a CLC Workbench. Results can also be exported to standard formats for downstream analysis or viewing using other applications.