/*******************************************************************************
 * MIT License
 *
 * Copyright (c) 2017 Piotr Rusin <piotr.rusin88@gmail.com>
 *
 * Permission is hereby granted, free of charge, to any person obtaining a copy
 * of this software and associated documentation files (the "Software"), to deal
 * in the Software without restriction, including without limitation the rights
 * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
 * copies of the Software, and to permit persons to whom the Software is
 * furnished to do so, subject to the following conditions:
 *
 * The above copyright notice and this permission notice shall be included in all
 * copies or substantial portions of the Software.
 *
 * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
 * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
 * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
 * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
 * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
 * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
 * SOFTWARE.
 *******************************************************************************/
package com.github.piotr_rusin.yule.config;

import java.util.Arrays;

import org.springframework.context.annotation.Bean;
import org.springframework.context.annotation.Configuration;
import org.thymeleaf.dialect.springdata.SpringDataDialect;

import com.vladsch.flexmark.ext.anchorlink.AnchorLinkExtension;
import com.vladsch.flexmark.ext.definition.DefinitionExtension;
import com.vladsch.flexmark.html.HtmlRenderer;
import com.vladsch.flexmark.parser.Parser;
import com.vladsch.flexmark.util.options.MutableDataSet;

@Configuration
public class AppConfig {

    @Bean
    public SpringDataDialect springDataDialect() {
        return new SpringDataDialect();
    }

    @Bean
    public MutableDataSet getMarkdownOptions() {
        MutableDataSet options = new MutableDataSet()
                .set(HtmlRenderer.GENERATE_HEADER_ID, true)
                .set(Parser.EXTENSIONS,
                        Arrays.asList(AnchorLinkExtension.create(),
                                DefinitionExtension.create()));
        return options;
    }

    @Bean
    public Parser getMarkdownParser(MutableDataSet options) {
        return Parser.builder(options).build();
    }

    @Bean
    public HtmlRenderer getMarkdownHtmlRenderer(MutableDataSet options) {
        return HtmlRenderer.builder(options).build();
    }

}

/*******************************************************************************
 * MIT License
 *
 * Copyright (c) 2017 Piotr Rusin <piotr.rusin88@gmail.com>
 *
 * Permission is hereby granted, free of charge, to any person obtaining a copy
 * of this software and associated documentation files (the "Software"), to deal
 * in the Software without restriction, including without limitation the rights
 * to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
 * copies of the Software, and to permit persons to whom the Software is
 * furnished to do so, subject to the following conditions:
 *
 * The above copyright notice and this permission notice shall be included in all
 * copies or substantial portions of the Software.
 *
 * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
 * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
 * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
 * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
 * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
 * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
 * SOFTWARE.
 *******************************************************************************/
package com.github.piotr_rusin.yule.config;

import java.util.Arrays;

import org.springframework.context.annotation.Bean;
import org.springframework.context.annotation.Configuration;
import org.thymeleaf.dialect.springdata.SpringDataDialect;

import com.vladsch.flexmark.ext.anchorlink.AnchorLinkExtension;
import com.vladsch.flexmark.ext.definition.DefinitionExtension;
import com.vladsch.flexmark.ext.footnotes.FootnoteExtension;
import com.vladsch.flexmark.html.HtmlRenderer;
import com.vladsch.flexmark.parser.Parser;
import com.vladsch.flexmark.util.options.MutableDataSet;

@Configuration
public class AppConfig {

    @Bean
    public SpringDataDialect springDataDialect() {
        return new SpringDataDialect();
    }

    @Bean
    public MutableDataSet getMarkdownOptions() {
        MutableDataSet options = new MutableDataSet()
                .set(HtmlRenderer.GENERATE_HEADER_ID, true)
                .set(Parser.EXTENSIONS,
                        Arrays.asList(AnchorLinkExtension.create(),
                                DefinitionExtension.create(),
                                FootnoteExtension.create()));
        return options;
    }

    @Bean
    public Parser getMarkdownParser(MutableDataSet options) {
        return Parser.builder(options).build();
    }

    @Bean
    public HtmlRenderer getMarkdownHtmlRenderer(MutableDataSet options) {
        return HtmlRenderer.builder(options).build();
    }

}

Add FootnoteExtension to the Markdown parser