Knime¶

Interactive Usage¶

After connecting to iceberg (see Establishing a SSH connection), start an interactive session with the qrshx command.

The latest version of Knime including all of the extensions can be loaded with

module load apps/knime

Alternatively, you can load a specific version of Knime excluding all of the extensions using one of the following

module load apps/knime/3.1.2

With extensions

module load apps/knime/3.1.2ext

Knime can then be run with

$ knime

Batch usage¶

There is a command line option allowing the user to run KNIME in batch mode:

knime -application org.knime.product.KNIME_BATCH_APPLICATION -nosplash -workflowDir="<path>"

• -application org.knime.product.KNIME_BATCH_APPLICATION launches the KNIME batch application.
• -nosplash does not show the initial splash window.
• -workflowDir=”<path>” provides the path of the directory containing the workflow.

Full list of options:

• -nosave do not save the workflow after execution has finished
• -reset reset workflow prior to execution
• -failonloaderror don’t execute if there are errors during workflow loading
• -updateLinks update meta node links to latest version
• -credential=name[;login[;password]] for each credential enter credential name and optional login/password
• -masterkey[=...] prompt for master password (used in e.g. database nodes),if provided with argument, use argument instead of prompting
• -preferences=... path to the file containing eclipse/knime preferences,
• -workflowFile=... ZIP file with a ready-to-execute workflow in the root of the ZIP
• -workflowDir=... directory with a ready-to-execute workflow
• -destFile=... ZIP file where the executed workflow should be written to if omitted the workflow is only saved in place
• -destDir=... directory where the executed workflow is saved to if omitted the workflow is only saved in place
• -workflow.variable=name,value,type define or overwrite workflow variable’name’ with value ‘value’ (possibly enclosed by quotes). The’type’ must be one of “String”, “int” or “double”.

The following return codes are defined:

• 0 upon successful execution
• 2 if parameters are wrong or missing
• 3 when an error occurs during loading a workflow
• 4 if an error during execution occurred

Installation Notes¶

These notes are primarily for administrators of the system.

Version 3.1.2 without extensions

• Download with wget https://download.knime.org/analytics-platform/linux/knime_3.1.2.linux.gtk.x86_64.tar.gz
• Move to /usr/local/extras/knime_analytics/3.1.2
• Unzip tar -xvzf knime_3.1.2.linux.gtk.x86_64.tar.gz

The modulefile is at /usr/local/extras/modulefiles/apps/knime/3.1.2

contains

#%Module1.0

proc ModulesHelp { } {
        puts stderr " Adds KNIME to your PATH environment variable and necessary libraries"
}

prepend-path PATH /usr/local/extras/knime_analytics/3.1.2

Version 3.1.2 with extensions

• Download with wget https://download.knime.org/analytics-platform/linux/knime-full_3.1.2.linux.gtk.x86_64.tar.gz
• Move to /usr/local/extras/knime_analytics/3.1.2ext
• Unzip tar -xvzf knime-full_3.1.2.linux.gtk.x86_64.tar.gz

The modulefile is at /usr/local/extras/modulefiles/apps/knime/3.1.2ext

contains

#%Module1.0

proc ModulesHelp { } {
        puts stderr " Adds KNIME to your PATH environment variable and necessary libraries"
}

prepend-path PATH /usr/local/extras/knime_analytics/3.1.2ext