update download link and naming

QIICR · Nov 28, 2018 · 2efe2e5 · 2efe2e5
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diff --git a/docs/results/seg/freesurfer.md b/docs/results/seg/freesurfer.md
@@ -21,7 +21,7 @@
 
 
 1. **Write task**:
-    * The file [fs2dicom-rsna2018-example-v2.tar.gz](https://gate.nmr.mgh.harvard.edu/filedrop2/index.php?p=3xrvjp4cpwo) contains the following, as well as files to create a [DICOM Structured Report](../../sr-tid1500/freesurfer):
+    * Download the file `fs2dicom-rsna2018-example-v2.tar.gz` by selecting the "Download -> Direct download" menu option from [here](https://www.dropbox.com/sh/srtqgxj70m4husr/AADv-XR-jlUxyYW2q99mVNC1a/Dataset5/SRTID1500-Dataset5-StructuredReports/fs2dicom?dl=0&lst=&preview=fs2dicom-rsna2018-example-v2.tar.gz&subfolder_nav_tracking=1). This contains contains the following, as well as files to create a [DICOM Structured Report](../../sr-tid1500/freesurfer):
         - `./dicom-anon`: Directory containting input DICOMs for a FreeSurfer-compatible T1 weighted MPRAGE sequence.
         - `./fs2dicom-rsna2018-example/fs-subjects/fs2dicom-rsna2018ex/`: Directory containing the output of the above DICOMs processed with FreeSurfer 6.0 subcortical segmentations
         - `./aseg-seg.dcm`: The DICOM seg image created by `fs2dicom`

diff --git a/docs/results/seg/index.md b/docs/results/seg/index.md
@@ -13,7 +13,7 @@
 | XNAT | <img src="../../images/waiting.png" width=25> | <img src="../../images/waiting.png" width=25> | <img src="../../images/waiting.png" width=25> |
 | [Pixelmed DicomImageViewer](pixelmed.md) | <img src="../../images/done.png" width=25> | <img src="../../images/done.png" width=25> | <img src="../../images/failed.png" width=25> |
 | [Siemens syngo.via](syngovia.md) ** * **| <img src="../../images/done.png" width=25> | <img src="../../images/failed.png" width=25> | <img src="../../images/done.png" width=25> |
-| [FreeSurfer](freesurfer.md) | <img src="../../images/done.png" width=25> | N/A | <img src="../../images/done.png" width=25> (see notes)|
+| [CorticoMetrics FreeSurfer conversion tools](freesurfer.md) | <img src="../../images/done.png" width=25> | N/A | <img src="../../images/done.png" width=25> (see notes)|
 | [Terarecon](terarecon.md) | <img src="../../images/done.png" width=25> | <img src="../../images/done.png" width=25> | <img src="../../images/failed.png" width=25>|
 
 

diff --git a/docs/results/sr-tid1500/freesurfer.md b/docs/results/sr-tid1500/freesurfer.md
@@ -18,12 +18,12 @@
 
 
 1. **Write task**:
-    * The file [fs2dicom-rsna2018-example-v2.tar.gz](https://gate.nmr.mgh.harvard.edu/filedrop2/index.php?p=3xrvjp4cpwo) contains the following:
+    * Download the file `fs2dicom-rsna2018-example-v2.tar.gz` by selecting the "Download -> Direct download" menu option from [here](https://www.dropbox.com/sh/srtqgxj70m4husr/AADv-XR-jlUxyYW2q99mVNC1a/Dataset5/SRTID1500-Dataset5-StructuredReports/fs2dicom?dl=0&lst=&preview=fs2dicom-rsna2018-example-v2.tar.gz&subfolder_nav_tracking=1). This contains the following:
         - `./dicom-anon`: Directory containting input DICOMs for a FreeSurfer-compatible T1 weighted MPRAGE sequence.
         - `./fs2dicom-rsna2018-example/fs-subjects/fs2dicom-rsna2018ex/`: Directory containing the output of the above DICOMs processed with FreeSurfer 6.0 subcortical segmentations
         - `fs-aseg-sr.json`: File containing the volume statistics calculated by FreeSurfer, used to create the DICOM SR
         - `./aseg-sr.dcm`: The DICOM SR image created by `fs2dicom`
-        - `./aseg-seg.dcm`: The DICOM SEG image created by `fs2dicom`
+        - `./aseg-seg.dcm`: The DICOM SEG image created by `fs2dicom`, described [here](../../seg/freesurfer)
         - `./readme.txt`: Description of these contents, and instructions on how to run `fs2dicom` on the results
     * Running the example (**NOTE:** `docker` and Python >= 3.4 are required to run this. See the `readme.txt` and the [`fs2dicom` GitHub page](https://github.com/corticometrics/fs2dicom) for more details):
 

diff --git a/docs/results/sr-tid1500/index.md b/docs/results/sr-tid1500/index.md
@@ -3,6 +3,7 @@
 | -- | -- | -- | -- |
 | [3D Slicer](3dslicer.md) | <img src="../../images/done.png" width=25> | <img src="../../images/done.png" width=25> | <img src="../../images/waiting.png" width=25> |
 | [ePAD](epad.md) | <img src="../../images/done.png" width=25> | <img src="../../images/done.png" width=25> | <img src="../../images/done.png" width=25> |
+| [CorticoMetrics FreeSurfer conversion tools](freesurfer.md) | <img src="../../images/done.png" width=25> | N/A | <img src="../../images/done.png" width=25> (see notes)|
 
 
 ## Legend

diff --git a/mkdocs.yml b/mkdocs.yml
@@ -37,13 +37,13 @@ pages:
       - AMI: results/seg/ami.md
       - Pixelmed: results/seg/pixelmed.md
       - dcmjs+cornerstone: results/seg/dcmjs+cornerstone.md
-      - FreeSurfer: results/seg/freesurfer.md
+      - CorticoMetrics FreeSurfer conversion tools: results/seg/freesurfer.md
       - Terarecon: results/seg/terarecon.md
   - Results - Measurements (DICOM SR TID1500):
       - Summary: results/sr-tid1500/index.md
       - ePAD: results/sr-tid1500/epad.md
       - 3D Slicer: results/sr-tid1500/3dslicer.md
-      - FreeSurfer: results/sr-tid1500/freesurfer.md
+      - CorticoMetrics FreeSurfer conversion tools: results/sr-tid1500/freesurfer.md
   - Results - Parametric maps:
       - Summary: results/pm/index.md
       - MeVisLab: results/pm/mevislab.md