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1 # NextFlow DSL2 Module
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2
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3 ```bash
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4 GEN_SAMPLESHEET
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5 ```
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6
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7 ## Description
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8
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9 Generates a sample sheet in CSV format that contains required fields to be used to construct a Groovy Map of metadata. It requires as input, an absolute UNIX path to a folder containing only FASTQ files. This module requires the `fastq_dir_to_samplesheet.py` script to be present in the `bin` folder from where the NextFlow script including this module will be executed.
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10
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11 \
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12
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13
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14 ### `input:`
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15
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16 ___
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17
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18 Type: `val`
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19
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20 Takes in the absolute UNIX path to a folder containing only FASTQ files (`inputdir`).
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21
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22 Ex:
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23
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24 ```groovy
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25 '/hpc/scratch/test/reads'
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26 ```
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27
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28 \
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29
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30
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31 ### `output:`
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32
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33 ___
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34
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35 Type: `path`
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36
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37 NextFlow output of type `path` pointing to auto-generated CSV sample sheet (`csv`).
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38
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39 \
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40
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41
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42 #### `csv`
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43
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44 Type: `path`
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45
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46 NextFlow output type of `path` pointing to auto-generated CSV sample sheet for all FASTQ files present in the folder given by NextFlow input type of `val` (`inputdir`).
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47
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48 \
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49
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50
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51 #### `versions`
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52
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53 Type: `path`
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54
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55 NextFlow output type of `path` pointing to the `.yml` file storing software versions for this process.
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