Last modified by Dennis Segebarth on 2026/02/26 10:27
From version 4.1
edited by Susan Evans
on 2023/07/10 21:48
Change comment: There is no comment for this version
To version 28.2
edited by Dennis Segebarth
on 2026/02/26 08:10
Change comment: There is no comment for this version

Summary

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1 -XWiki.sgevans
1 +XWiki.dsegebarth
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3 -" data-xwiki-parameter-name="title" class="xwiki-metadata-container">Table of Contents
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12 -
13 13  {{box cssClass="floatinginfobox" title="Table of Contents"}}
14 14  {{toc/}}
15 15  {{/box}}
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22 22  
23 23  All files uploaded to the platform land in the //Green Room//. In this isolated storage area, the only people who can view and download the files you have uploaded are you and the Project Administrator(s). Project Administrators can verify that the data are compliant with the Project’s data management plan before being copied to the //Core //where all other Project members (except Project Contributors, see //Managing HDC Projects > Project Roles//) can view and access the file.
24 24  
25 -[[image:Project File Upload v2.0.10 2023-01-17.png||height="8%" width="50%"]]
13 +[[image:1723802592552-117.png||height="139" width="859"]]
26 26  
27 27  == Prerequisites ==
28 28  
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62 62  * //Moving and renaming files and folders~://** **Once a file or folder is uploaded it cannot be moved or renamed in the Green Room File Explorer. Instead, you can re-upload the file or folder with a different name or destination, or copy the file or folder to the Core and use the Workspace tools to organize the Project files.
63 63  * //Uploading duplicate files: //Duplicate files cannot be uploaded to the same destination folder. If you attempt to upload a file that already exists in the destination folder with the same filename, an error message is returned. Instead, you can either upload the file with a different filename, or create a new Green Room folder and upload the file to the new folder.
64 64  
53 +----
54 +
65 65  = Checking File Status =
66 66  
67 67  You can check the progress and completion status (success or failure) of Project files uploaded, downloaded, and deleted during the current login session using the File Status panel. Click the **File Status icon** in the Main Menu to open the File Status panel then browse the activity tabs (**In Progress**, **Uploaded**, **Downloaded**, **Trash Bin**).
68 68  
69 -[[image:Project File Status v2.0.10 2023-01-16.png||height="20%" width="50%"]]
59 +[[image:1723802613048-462.png||height="474" width="864"]]
70 70  
71 71  To view the complete history of all Project files uploaded, downloaded and deleted, not just activities in the current login session, use the File Stream Advanced Search.
72 72  
73 -[[image:Project Recent File Stream Advanced Search v2.2.6 2023-04-14.png||height="21%" width="50%"]]
63 +[[image:1723802630131-211.png||height="358" width="870"]]
74 74  
75 75  1. Navigate to the Project Canvas and locate the Recent File Stream panel.
76 76  1. Click **Advanced Search** to open the File Stream Advanced Search.
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82 82  
83 83  The Portal provides the ability to resume a file upload already in progress so you don’t have to restart the upload from the beginning.
84 84  
85 -[[image:Resume File Upload v2.2.6 2023-04-13 1815.png||height="19%" width="50%"]]
75 +[[image:1723802641609-122.png||height="324" width="871"]]
86 86  
87 87  To resume a file upload after a failure:
88 88  
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90 90  1. Open the **File Status panel** and check the **In Progress** tab for the failed file. Click **Re-upload file** and select the same file from your local source folder.
91 91  1. The upload resumes as shown by the progress bar and successful completion is indicated in the **File Status panel**.
92 92  
83 +----
84 +
93 93  = Viewing File Properties =
94 94  
95 95  The File Properties panel displays detailed metadata about Project files to help find them and facilitate their appropriate use.
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108 108  
109 109  For a detailed description of other information available in the File Properties menu, see sections //Adding and Modifying File Tags//, //Adding and Modifying File Attributes,// and //Data Lineage Graph.//
110 110  
103 +----
104 +
111 111  = Previewing Files =
112 112  
113 113  The File Previewer can be used to check the inner folder structure of uploaded file archives. Supported types include:
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117 117  * 7zip: .7z
118 118  * RAR: .rar
119 119  
120 -[[image:Projects File Previewer v2.2.3 2023-05-03.png||height="29%" width="50%"]]
114 +[[image:1723802657065-379.png||height="506" width="868"]]
121 121  
122 122  1. Locate the file in the File Explorer.
123 123  1. Click the **Action icon** (three dots) beside the file and select **Preview** (only visible for archive file listed above).
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126 126  
127 127  To unzip the file, use one of the available workspace tools such as a Jupyter notebook in **JupyterHub **(see //Using HDC Workspace Tools//).
128 128  
123 +----
124 +
129 129  = Adding and Modifying File Tags =
130 130  
131 131  File Tags are keywords assigned to files and/or folders to help describe them and allow them to be found. Two types of tags can be associated with Project files:
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160 160  
161 161  Recommended for bulk tagging of files and folders.
162 162  
163 -[[image:Project Customized Tags v2.0.10 2023-01-17.png||height="8%" width="50%"]]
159 +[[image:1723802673774-424.png||height="141" width="868"]]
164 164  
165 165  1. Navigate to the Project File Explorer (Green Room or Core).
166 166  1. Select one or more files and/or folders by clicking the checkbox beside each one, then click **Add/Remove Tags** in File Explorer menu.
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182 182  * In the Green Room, Customized Tags can only be added or edited by the Project Member who uploaded the file, or the Project Administrator.  In the Core, Collaborators and Project Administrators can edit Customized tags of files in any folder.
183 183  * Tags can also be attached to Projects and Datasets.
184 184  
181 +----
182 +
185 185  = Adding and Modifying File Attributes =
186 186  
187 187  It may be important to annotate your uploaded Project files with descriptive metadata that conform with your own defined categories, formats, or values to make the files more readily searchable and machine readable. For example, when uploading a file containing test scores you wish to specify metadata on the research site that performed the test, or on a DICOM imaging file you wish to specify the MRI scanner manufacturer. File Attributes enable this enriched metadata capture on files.
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192 192  
193 193  Use this method to add Project-specific metadata annotations to your files on upload.
194 194  
195 -[[image:Projects File Attributes v2.1.2 2023-01-18.png||height="46%" width="40%"]]
193 +[[image:1723802688075-223.png||height="456" width="394"]]
196 196  
197 197  1. Begin a File upload (see //Uploading Files//)
198 198  1. Select a File Attribute template from the dropdown menu (only visible if the Project Administrator has configured File Attributes) and enter the requested information.  File Attributes can be either required or optional on upload depending on how the Project Administrator has configured them. 
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201 201  
202 202  == Method 2: from the Project File Explorer ==
203 203  
204 -[[image:Projects File Attributes from File Explorer v2.1.2 2023-01-18.png||height="8%" width="50%"]]
202 +[[image:1723802709785-695.png||height="139" width="856"]]
205 205  
206 206  1. Navigate to the Project File Explorer Green Room or Core.
207 207  1. Select one or more files and/or folders by clicking the checkbox beside each one, then click **Add Attributes** in File Explorer menu.
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209 209  
210 210  File Attributes added to a file or folder are visible in its Properties menu in the File Explorer. Additionally, you can search all Project Files for specific File Attributes by using the Project Search tool (see //Projects Interface > Search //in the article //HDC Portal Navigation//).
211 211  
210 +----
211 +
212 212  = Requesting File Copy from the Green Room to the Core =
213 213  
214 214  The Core is the storage area where Project members can access each others’ Project files, create file collections, and use the workspace tools to open files and perform analyses.
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217 217  
218 218  To submit a request to copy data from the Green Room to the Core (requires Collaborator role),
219 219  
220 -[[image:Projects Request Copy to Core v2.1.2 2023-01-18.png||height="9%" width="50%"]]
220 +[[image:1723802723363-498.png||height="157" width="867"]]
221 221  
222 222  1. Navigate to the Project File Explorer Green Room
223 223  1. Select one or more files and/or folders to be copied by clicking the checkbox beside each one. The Request to Core option becomes visible in the File Explorer menu.
... ... @@ -229,11 +229,13 @@
229 229  
230 230  To view your submitted and approved requests:
231 231  
232 -[[image:Projects Requests Left Menu v2.3.3 2023-04-26.png||height="27%" width="50%"]]
232 +[[image:1723802735878-454.png||height="317" width="587"]]
233 233  
234 234  1. Click the Requests icon from the Project left menu bar.
235 235  1. Click **New** to view your new requests that have not been fulfilled, or **Completed **to view requests that the Project Administrator has fulfilled. Requests are identified by the username and the date/time stamp when the request was submitted.
236 236  
237 +----
238 +
237 237  = Viewing Data Lineage =
238 238  
239 239  When you copy data from one location to another, execute a pipeline, or perform other actions on a file, the platform data lineage service captures the points in the file’s journey and displays them in the File Properties Data Lineage graph.
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252 252  * //Upstream lineage// displays the points in a file's journey up to its current state. For example, a file newly uploaded to the Green Room has only one upstream point, the Green Room File node, representing the point when the file was introduced the the platform.
253 253  * //Downstream lineage// displays points in a file’s journey from a specific state forward. For example, when viewing the lineage of a file stored in the Green Room that was later copied to the Core, the downstream lineage displays the Green Room File node, the copy Pipeline, and the Core File node.
254 254  
255 -[[image:Project File Lineage v2.1.3 2023-01-19.png||height="25%" width="50%"]]
257 +[[image:1723802879104-591.png||height="397" width="802"]]
256 256  
259 +----
260 +
257 257  = Downloading Files =
258 258  
259 259  ​Files can be downloaded individually or in bulk directly from the File Explorer.
260 260  
261 -[[image:Projects File Download v2.1.3 2023-01-19.png||height="9%" width="50%"]]
265 +[[image:1723802890566-839.png||height="164" width="868"]]
262 262  
263 263  1. Before downloading a file, check your browser settings and ensure that pop-up windows are enabled.
264 264  1. (((
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276 276  * Download performance may be impacted by your internet connection.
277 277  * Ensure pop-ups are enabled in your browser.
278 278  
279 -= Deleting Files =
283 +----
280 280  
281 -Project members can delete files that are no longer needed in the Green Room or Core. When you delete a file, it is moved to a Trash Bin where it can be permanently deleted later, or restored in case of accidental deletion.
285 += Deleting Files and Folders =
282 282  
283 -[[image:Projects File Delete v2.1.3 2023-01-19.png||height="9%" width="50%"]]
287 +== Moving Items to the Trash Bin ==
284 284  
289 +Project members can move files or folders that are no longer needed in the Green Room or Core to the Trash Bin. Items in the Trash Bin can be marked for permanent deletion (see below), or restored back to the original location in Green Room or Core.
290 +
291 +[[image:1772032907007-375.png]]
292 +
285 285  1. Navigate to the Project File Explorer Green Room or Core.
286 -1. Select one or more files and/or folders by clicking the checkbox beside each one (or use the select all checkbox), then click **Delete **in File Explorer menu//.//
294 +1. Select one or more files and/or folders by clicking the checkbox beside each one (or use the select all checkbox), then click **Move to Trash Bin **in File Explorer menu//.//
287 287  1. A popup window prompts you to confirm the file deletion. Click **OK** or cancel to exit without deleting.
288 288  1. The file is moved to the Trash Bin.
289 289  
290 -Open the File Status panel to check the status of the single file deletion, or open the Trash Bin in the left menu of the File Explorer to view all files in your Trash Bin. Files can be permanently deleted by a Platform Administrator.
298 +Open the File Status panel to check the status of the single file deletion, or open the Trash Bin in the left menu of the File Explorer to view items in the Project`s Trash Bin (your role in the Project governs what items are visible to you).
291 291  
300 +{{info}}
301 +**Note:** Items in the Trash Bin are not yet deleted. You can imagine it like the "Recycle Bin" in Windows OS. Thus, if you want to permanently delete a file or folder, check the following sections on //Mark Items for Deletion// and //Deleting Items immediately//. Please note that these actions are available only to members that hold the Project Administrator role.
302 +{{/info}}
303 +
304 +== Restoring Items from the Trash Bin ==
305 +
306 +All Project members can restore items visible to them in the Trash Bin back to their original location in the Green Room or Core. For this:
307 +
308 +1. Navigate to the Project File Explorer Trash Bin.
309 +1. Use the Actions Menu (three dots) in the row of the respective item you´d like to restore to open the Actions drop down menu.
310 +1. In the Actions drop down menu, click **Restore** to restore the item to its original source location in the Green Room or Core.
311 +
312 +[[image:Restore_from_Trash_Bin.png||height="251" width="868"]]
313 +
314 +== Mark Items for Deletion ==
315 +
316 +Items in the Trash Bin will not be deleted automatically and continue to consume your Project´s available resources. As a Project Administrator, you can go to the Trash Bin and mark files and folders for permanent deletion. For this:
317 +
318 +1. Navigate to the Project File Explorer Trash Bin.
319 +1. Use the Actions Menu (three dots) in the row of the respective item you´d like to mark for permanent deletion to open the Actions drop down menu.
320 +1. In the Actions drop down menu, click **Delete **to mark the item for permanent deletion.
321 +
322 +
292 292  == Considerations ==
293 293  
294 294  * Delete permission is role-based - any Project member can delete files that they uploaded in the Green Room, Collaborators can delete files from any folder in the Core, and Project Administrators can delete any file from any location.
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295 295  * Deleted files are moved to a Trash Bin but are not permanently removed from the platform until requested.
296 296  * Files that have been copied to a Dataset will remain in the Dataset even if the original version has been deleted from the Core.
297 297  
329 +
330 +----
331 +
298 298  = Creating File Collections =
299 299  
300 -When working with Project files in the Core, it can be useful to organize them in temporary or permanent views to help find them more easily. A Collection gives Project members the flexibility to create their own virtual groups of Project files from any number of Core folder locations. Similar to a music playlist, a Collection establishes a reference to the file(s) without moving or copying the actual files themselves. Adding a Collection to your Favourites gives you quick access to it from your My Space page.
334 +When working with Project files in the Core, it can be useful to organize them in temporary or permanent views to help find them more easily. A Collection gives Project members the flexibility to create their own virtual groups of Project files from any number of Core folder locations. Similar to a music playlist, a Collection establishes a reference to the file(s) without moving or copying the actual files themselves. Adding a Collection to your Favourites gives you quick access to it from your Dashboard page.
301 301  
302 302  You can start by creating an empty Collection before adding any files to it, or create a Collection and add files at the same time.
303 303  
304 304  == Create an empty Collection ==
305 305  
306 -[[image:Projects Core Create Collection v2.1.5 2023-01-20 1130.png||height="27%" width="40%"]]
340 +[[image:1723802914607-379.png||height="328" width="490"]]
307 307  
308 308  1. Navigate to the Project’s Core File Explorer .
309 309  1. From the Left navigation menu, click **Create Collection**.
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312 312  
313 313  == Add files to a Collection ==
314 314  
315 -[[image:Projects Core Add to Collection v2.1.3 2023-01-19.png||height="10%" width="50%"]]
349 +[[image:1723802928478-851.png||height="178" width="869"]]
316 316  
317 317  1. Navigate to the Project’s Core File Explorer .
318 318  1. Select one or more files and/or folders by clicking the checkbox beside each one (or use the select all checkbox), then click **Add to Collection **in File Explorer menu//.//
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325 325  
326 326  == Remove files from a Collection ==
327 327  
328 -[[image:Projects Core Remove File from Collection v2.1.5 2023-01-20.png||height="10%" width="50%"]]
362 +[[image:1723802939784-600.png||height="179" width="879"]]
329 329  
330 330  1. Click the name of the Collection in the left File Explorer navigation menu to open it.
331 331  1. Click the checkbox beside the file(s) to be removed, then click **Remove from Collection** in the File Explorer menu.
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334 334  
335 335  == Deleting or renaming a Collection ==
336 336  
337 -[[image:Projects Core Delete Rename Collection v2.1.5 2023-01-20.png||height="12%" width="50%"]]
371 +[[image:1723802950421-299.png||height="200" width="862"]]
338 338  
339 339  1. Click the name of the Collection in the left File Explorer navigation menu to open it.
340 340  1. Click either the Delete or Rename tool in the File Explorer menu.
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348 348  * A file can be added to one or more Collection(s).
349 349  * Adding or removing files in a Collection does not change the file's storage location or data lineage.
350 350  
385 +----
386 +
351 351  = Adding Files and Collections to Favourites =
352 352  
353 353  File and Collections from your Project can be “starred” to add them as Favourites and make them quickly accessible in the Favourites panel in the Dashboard
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357 357  
358 358  ----
359 359  
360 -Copyright © 2023 [[Indoc Research>>url:https://www.indocresearch.org/]].
396 +Copyright © 2023-2026 [[Indoc Systems>>url:https://www.indocsystems.com]].
361 361  
362 -HealthDataCloud is powered by Pilot technology, a product of [[Indoc Research>>url:https://www.indocresearch.org/]].
363 -
364 -
398 +HealthDataCloud is powered by Pilot technology, a product of [[Indoc Systems>>url:https://www.indocsystems.com]].
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