update napari link and minor change in GUI

RUB-Bioinf · May 18, 2022 · ae1aa70 · ae1aa70
1 parent 9874cf0
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Showing 4 changed files with 3 additions and 7 deletions.
diff --git a/README.md b/README.md
@@ -141,7 +141,7 @@ https://www.uni-due.de/experimental-immunology
 
 [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.5733150.svg)](https://doi.org/10.5281/zenodo.5733150)
 
-Download our example data from [Zenodo](https://zenodo.org/record/5733150#.YajQ1S9Xb5k) containing 3D light-sheet microscopic images of different organs with corresponding preset parameters for each organ. For segmentation parameter tuning you can use our [Napari plugin](https://www.napari-hub.org/plugins/vessel-express).
+Download our example data from [Zenodo](https://zenodo.org/record/5733150#.YajQ1S9Xb5k) containing 3D light-sheet microscopic images of different organs with corresponding preset parameters for each organ. For segmentation parameter tuning you can use our [Napari plugin](https://www.napari-hub.org/plugins/vessel-express-napari).
 
 ## Feedback & Bug Reports
 

diff --git a/Webinterface/server/home.py b/Webinterface/server/home.py
@@ -1,5 +1,4 @@
 from os import (
-    listdir,
     path
 )
 
@@ -26,7 +25,6 @@
 ##### Import functions #####
 import utils
 from app import (
-    ALLOWED_EXTENSIONS,
     DOWNLOAD_RESULTS
 )
 

diff --git a/Webinterface/server/utils.py b/Webinterface/server/utils.py
@@ -104,7 +104,6 @@ def download_images(all_results=None, flash_collection=None, firstrun=None):
             return flash_collection
     else:
         # Zip everything except files that end with .zip and the config_standard.json #
-        zip_ignore = len(glob(path.join(current_app.config['UPLOAD_FOLDER'], '*zip')))
         with ZipFile(path.join(current_app.config['UPLOAD_FOLDER'], DOWNLOAD_RESULTS), 'w') as zip_filename:
             # Iterating over upload_folder and all subdirs to write them into a zip file #
             for dir, _, files in walk(current_app.config['UPLOAD_FOLDER']):
@@ -226,7 +225,7 @@ def run_pipeline(flash_collection):
     '''
     if not any((image.endswith(tuple(ALLOWED_EXTENSIONS))) for image in
                listdir(current_app.config['UPLOAD_FOLDER'])):
-        flash_collection.append({'message': 'No image found!', 'type': 'warning'})
+        flash_collection.append({'message': 'Found nothing to process!', 'type': 'warning'})
         return flash_collection
     else:
         is_pipeline_not_done = True

diff --git a/Webinterface/templates/main.html b/Webinterface/templates/main.html
@@ -95,7 +95,7 @@ <h2 class="ui huge header">
             <div class="ui raised segment">
                 Try VesselExpress by uploading single-channel grayscale TIF image stacks. You may want to change the
                 parameters in the sidebar. Hover over the labels for description. We provide a
-                <a href="https://www.napari-hub.org/plugins/vessel-express" target="_blank" style="color: #00796b">Napari plugin</a>
+                <a href="https://www.napari-hub.org/plugins/vessel-express-napari" target="_blank" style="color: #00796b">Napari plugin</a>
                  for segmentation parameter tuning and parameter presets for our
                 <a href="https://doi.org/10.5281/zenodo.5733150" target="_blank" style="color: #00796b">example data</a>.
                 Make your changes in the sidebar and confirm by clicking "Apply configurations". As soon as you start
@@ -312,7 +312,6 @@ <h3 style="padding-top: 0px !important;">VesselExpress console:</h3>
                 dataType: 'json'
             }).done(function (flash_collection) {
                 flash_handler(flash_collection)
-                Dropzone.forElement('#myDropzone').removeAllFiles(true)
             });
         });
         //});