view import_local_file.xml @ 9:8d6bf2bd8932 draft default tip

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<?xml version="1.0"?>
<tool id="import_local_file" name="Import local file" version="1.2.0">
  <description>from a local filesystem</description>
  <command interpreter="sh">import_local_file.sh '$filepath' $output $userEmail</command>
  <inputs>   
    <param name="filepath" type="text" size="100" label="Absolute file path" value="/home/foo/blah">
      <validator type="expression" message="The path must begin with either /home or /data">value.lower()[0:5] == '/home' or value.lower()[0:5] == '/data'</validator>
    </param>
      
  </inputs>
  <outputs> 
    <data format="txt" name="output" label="local import: $filepath" />
  </outputs>
  <help>

.. class:: infomark

**Copying files**

This tool will allow you to upload a single file that is locally available on Helix or Biowulf.  There is no browse function,
however, so you will need to give the full path name.  If you have permission to read the file, Galaxy can import the file.

.. class:: warningmark

**Important Notes**

- The file path must be a file, not a directory
- You must give the fullpath to the file (/home/user/myfile.txt, not ./myfile.txt)
- You must have permission to read the file
- Only /home or /data directories are allowed
- The files must be on Helix or Biowulf!  Use 'Upload File' for all other files!

-----

**Example**

- /home/user/bamfiles/abc123.bam
- /data/anotheruser/data/good_data/very_good_data.txt

  </help>
</tool>