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Navigating to templates tab, you will find an action under Create - Markdown template.
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Clicking on Markdown template, you are brought to the markdown template builder.
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Here JQL section is added in textual format. If clicked on, edit & delete actions appear on screen. The JQL section pop-up is exactly same as that of other template builders.
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A sample markdown can be generated by clicking on preview & then selecting a version. In case of markdown, a view action appears that allows you to view the raw markdown or resulting html.
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