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User Guide

Terminology

  • A Dataset is a top-level directory that contains one or more subdirectories and/or files that are somehow related
    • For example, a Dataset might be all the files output from an analysis pipeline for a particular experiment
  • Metadata is additional data attached to files (files only, not Datasets or directories)
    • Metadata is a property name paired with one or more values
      • For example:
        Experiment Organism: Mouse
      • Or if the experiment was performed on 2 organisms:
        Experiment Organism: Mouse, Zebrafish
    • Files that have been assigned Metadata can then be grouped by that data, regardless of what Dataset or directory the files are in
      • For example, setting the Group By dropdown to Experiment Organism will group all of the files that are related to Mouse and all those that are related to Zebrafish across all Datasets and directories
    • The metadata displayed for directories and Datasets is the aggregate of the contents of the directory or Datasets
      • For example, if a directory only contains mouse files, the directory Metadata will be Experiment Organism: Mouse
      • But if the directory also contains one or more Zebrafish files, the directory Metadata will be Experiment Organism: Zebrafish, Mouse

Browsing Files

Tree View & List View
  • If you do not see the button in the top left hand corner this feature has been disabled, please skip this section

  • The button in the top left hand corner switches to the Tree View that allows files to be browsed by expanding and collapsing datasets or directories to show the contents

  • The button in the top left hand corner switches to the List View that shows all files and associated paths

Datasets & All Files
  • If you do not see the Datasets toggle in the top left hand corner this feature has been disabled, please skip this section

  • The Datasets toggle in the top left hand corner groups and displays files by their top-level dataset.

    • Using this with the List View shows a list of all datasets
  • The All Files toggle in the top left hand corner removes the top-level dataset from view and unifies all the files across all datasets
    • Using this with the List View shows every file available

Setting Columns

  • All column settings are saved, so FileSlide remembers your preferences each tme you sign-in
  • Columns can be added and removed from view by clicking on the Select Columns button
  • Columns can be ordered by pointing the mouse over the column header and then when the hand button apears, draging and dropping the column into place
  • Columns can be resized by pointing the mouse over the right edge of a column header and then when the arrow button appears, dragging the column to size
  • In the Tree View, there are separate column settings for:
    1. When one or more datasets are expanded; and
    2. When all datasets are collapsed
      • This allows for a different column view settings to be triggered when a dataset is expanded vs when all datasets are collapsed

Searching, Filtering and Sorting

  • The column header text boxes can be used to search and filter table rows
  • If searching/filtering with more than one column at a time, only rows that match all of the conditions across the columns are displayed (ie logical AND)
  • The column header text boxes have a preceding * or = button. Clicking on this button allows switching between the two
    • The * indicates a wildcard match - this will only show rows with a value in the column that contains any of the term
      • For example, entering ello will match rows with the value hello_world.jpg and yellow_submarine.jpg
    • The = indicates an exact match - this will only show rows with a value in the column that exactly matches the term
      • For example, entering hello.jpg will only match rows with the value hello.jpg but NOT rows with the value hello_world.jpg and yellow_submarine.jpg
  • In Tree View, filtering the Name column is special because it searches and filters down through children directories not just what is in-view
    • For example: if a directory named Colors contains the file yellow.jpg but the directory is collapsed, filtering for yellow.jpg will display the Colors directory
  • The button at the top of columns allows rows to be sorted by that colum

Downloading and Viewing

Individual Files
  • Individual files can be downloaded by clicking on the button in the first column
  • Some web-viewable files (eg images, HTML, PDF, etc) will also display an button allowing the file to be opened directly in the browser
Multiple Files
  • To download multiple files at once you will need to use either a command line (recommended) or a browser plugin such as DownloadThemAll
  • We provide a single-line command that can be copy-pasted to automatically download all of the selected files and creates the associated directory structures
    • This command requires the wget utlity that is freely available for OSX, Linux and Windows
  • The button next to directories or datasets pops up a window that allows the wget command or a list of links to be copied
  • Selecting files or directories with the checkbox and then clicking the button at the top pops up a window that allows you to copy the wget command or a list of links for those selected files, directories and datasets.

Picklists

  • A picklist is like a shopping cart with specific files and directories that can be saved and labelled so they can be easily located and downloaded together
  • Select the checkboxes of one or more files, direcotries or datasets and use the button to add the files to the currently selected Picklist
  • Click on the picklist tab to view the currently selected picklist
  • Click on the Change Picklist dropdown to select a different picklist to work with
  • To remove files, directories or datasets from the picklist, select the corresponding checkboxes and click the button
  • To create a new picklist click the button
  • To create a new picklist from a copy of an existing picklist click the button
  • To rename a picklist click the button
  • To delete a picklist click the button (this does not delete any files)
  • Clicking the button at the top pops up a window that allows you to copy the wget command or a list of links for all files, directories and datasets in the currently selected picklist.