使用检查点的多个输出的Snakemake语法

在Snakemake中，可以通过指定多个输出文件来实现检查点的功能。以下是一个使用检查点的多个输出的Snakemake语法示例：

rule all:
    input:
        "output1.txt",
        "output2.txt"

rule generate_data:
    output:
        "temp_output1.txt",
        "temp_output2.txt"
    shell:
        """
        echo "Generating data..."
        echo "Data 1" > temp_output1.txt
        echo "Data 2" > temp_output2.txt
        """

rule process_data_1:
    input:
        "temp_output1.txt"
    output:
        "output1.txt"
    shell:
        """
        echo "Processing data 1..."
        cat temp_output1.txt > output1.txt
        """

rule process_data_2:
    input:
        "temp_output2.txt"
    output:
        "output2.txt"
    shell:
        """
        echo "Processing data 2..."
        cat temp_output2.txt > output2.txt
        """

rule cleanup:
    input:
        "output1.txt",
        "output2.txt"
    output:
        touch("done.chk")
    shell:
        """
        echo "Cleaning up..."
        rm temp_output1.txt
        rm temp_output2.txt
        """

rule checkpoint_cleanup:
    input:
        "done.chk"
    output:
        "final_output1.txt",
        "final_output2.txt"
    shell:
        """
        echo "Creating final output files..."
        cp output1.txt final_output1.txt
        cp output2.txt final_output2.txt
        """

在这个示例中，我们定义了几个规则：