## page was renamed from Master Test Plan/UI Test Cases/File menu - main
||'''Preconditions'''||'''Test Case ID'''||'''Instructions'''||'''Expected Results'''|| '''Date Executed'''||'''Results'''||
||<|10> 1. Start Cytoscape <<BR>>2. Import a network file (e.g. galFiltered.sif) <<BR>>3. Click on File from the toolbar||
||FM1.1||Select New → Network → Empty Network||A new empty network canvas should appear called Network and it should appear in the list under the Networks tab in the control panel|| || ||
||FM1.2||1. Hold shift and click on 5 nodes near each other <<BR>>2. Select New → Network → From selected nodes, all edges||A new network canvas, with the selected nodes and all the edges that connect them, should be created|| || ||
||FM1.3||1. Drag and select several nodes and edges <<BR>>2. Select New → Network → From selected nodes, selected edges||A new network canvas with only selected nodes and edges should be created|| ||||
||FM2||Select New → Session, click Yes when the caution box appears||A new session should be started with a clear canvas and no networks|| ||||
||FM3||Select Open and choose the galFiltered.cys session file from the sampleData directory||A session file with the galFiltered.gml network imported should be displayed|| || ||
||FM4||Click Save||Cytoscape should save your progress to the current session file (galFiltered.cys)|| || ||
||FM5||1. Click Save As… and type “galFiltered1.cys” into the text field <<BR>>2. Click Save||Cytoscape should create a new .cys file with the name entered in the specified directory|| || ||
||FM6||Select Print and choose the appropriate printer and desired settings and then click print||A print out of the currently selected network should be produced|| || ||
||FM7||1. Select Quit and click Yes, save and quit <<BR>>2. Start Cytoscape and load the .cys file||The .cys should contain the latest version of the test session with all the changes saved before quitting|| || ||


## page was renamed from Cytoscape_2.7/UI Test Cases/Import sub menu
== UI Test Cases for File Menu - Import sub menu ==
||'''Preconditions'''||'''Test Case ID'''||'''Instructions'''||'''Expected Results'''||||'''Date Executed'''||
||<|12> 1. Start Cytoscape <<BR>>2. Import a network file (e.g. galFiltered.sif) <<BR>>3. Click on File from the toolbar||
||<rowbgcolor = "#FFCC99"> FM9.1||1. Select Import → Network (multiple file types)… <<BR>>2. Choose the galFiltered.xgmml file from the sampelData directory and click Import||A new version of the galFiltered network should appear in a different window|| || ||
||<rowbgcolor = "#8080FF"> FM9.2||Import Network from Table (Text/MS Excel) is covered under the Table Import core plugin test cases|| || || ||
||<rowbgcolor = "#FFCC99"> FMFM9.3|| Select Import -> from web services, enter a valid gene and select the organism. Select the gene from the list that is produced and hit 'Retrieve Interactions' button, click ok on the window that appears|| The network of genes related to the entered gene should appear|| || ||
||<rowbgcolor = "#8080FF">FM9.4||Importing node attributes is covered under the Node Attribute Browser core plugin test cases|| || || ||
||<rowbgcolor = "#8080FF">FM9.5||Importing Attributes from Table (Text/MS Excel) is covered under the Browser Core Plugins Test Cases|| || || ||
||<rowbgcolor = "#8080FF">FM9.6||Importing edge attributes is covered under the Edge Attribute Browser core plugin test cases|| || || ||
||<rowbgcolor = "#FFCC99"> FMFM9.7||1. Select Import → Ontology and Annotation… <<BR>>2. Select Gene Association File for Saccharomyces cerevisiae from the Annotation menu and leave the default setting for Ontology <<BR>>3. Select one of the galFiltered networks and click on Go common Name from the Node Attribute Browser Select Attributes menu||Cytoscape should show a large network under the Networks tab in the Control Panel (view not created due to size) and there should be new attributes available for selection in the Node Attribute Browser|| ||||
||<rowbgcolor = "#8080FF">FM9.8||Importing an Attribute Expression Matrix is covered under the Node Attribute Browser core plugin test cases|| || || ||
||<rowbgcolor = "#FFCC99"> FM9.9||1. Select Import → Vizmap Property File… <<BR>>2. Choose sampleStyles.props from the sampleData directory and click Open||All the nodes in the galFiltered network should be light gray with no border and each edge should be a black line labelled with the type of interaction that it represents|| ||||
||<rowbgcolor = "#FFCC99"> FM9.10||1. Select Import → Import Attributes from Biomart… <<BR>>2. Select ''ENSEMBL GENES xx (SANGER UK) – Saccharomyces cerevisiae genes (SGD1.01)'' (where xx is the latest version of ENSEMBL data set) from the Data Source menu and ''ENSEMBLE Gene ID'' from the Data Type menu <<BR>>3. Click ''!EntrezGene ID'' check box on the list of available attributes and click Import <<BR>>4. Select one of the galFiltered networks and click on the new attribute from the Node Attribute Browser Select Attributes menu||New attributes ''!EntrezGene ID'' and ''!EntrezGene ID-TOP'' should be available for selection under the Node Attribute Browser|| ||||
||<rowbgcolor = "#FFCC99"> FM9.11 ||1. Select Import → Import Attributes from NCBI Entrez Gene…  <<BR>>2. Select ''!EntrezGene ID-TOP'' for Attribute<<BR>>3. Select all of the items in the ''Available Annotation Category''<<BR>>4. Click Import <<BR>>5. Select one of the galFiltered networks and click on ''Pathway'' in the Node Attribute Browser Select Attributes menu||New attributes should be available for selection under the Node Attribute Browser and some of the nodes should have KEGG Pathway information.|| ||||






== UI Test Cases for File Menu - Export sub menu ==

||'''Preconditions'''||'''Test Case ID'''||'''Instructions'''||'''Expected Results'''||'''Date Executed'''||'''Pass/Fail'''||
||<|10> 1. Start Cytoscape <<BR>>2. Import a network file (e.g. galFiltered.sif) <<BR>>3. Click on File from the toolbar||FM10.1||1. Select Export → Network and attributes as XGMML… <<BR>>2. Save as Test1.xgmml <<BR>>3. Close Cytoscape and restart it, Select Import → Network (multiple file types)… and import Test1.xgmml||Test1 should be an exact copy of the network exported before restarting Cytoscape|| ||||
||FM10.2||1. Select Export → Network as GML… <<BR>>2. Save as Test2.gml <<BR>>3. Select Import → Network (multiple file types)… and import Test2.gml||Test2 should be a copy of the network exported but should have slightly different features (e.g. Background)|| || ||
||FM10.3||1. Select Export → Network as SIF File… <<BR>>2. Save as Test3.sif <<BR>>3. Select Import → Network (multiple file types)… and import Test3.sif||Test3 should be a copy of the network exported and should be exactly the same as galFiltered.sif|| || ||
||FM10.4||0. Load galFiltered.cys<<BR>>1. Select Export → Node Attributes <<BR>>2. Click the "Ensembl Family ID" check box from the list of attributes <<BR>>3. Click Choose Directory and Save, select the desired directory and click Choose||Verify that the attributes were saved by opening the attribute file in a text editor, the file should contain a list of the gene IDs from the network and their corresponding GO common names|| || ||
||FM10.5||1. Select Export → Edge Attributes <<BR>>2. Click the interaction check box from the list of attributes <<BR>>3. Click Choose Directory and Save, select the desired directory and click Choose||Verify that the attributes were saved by opening the attribute file in a text editor, the file should contain a list of the edge IDs from the network and their corresponding interactions|| || ||
||FM10.6||1. Create a copy of the current visual style and give it a new name<<BR>>2. Change the node color for the copied style<<BR>>3. Select Export → Vizmap properties <<BR>>4. Type Test4.props as the file name, choose the appropriate directory and click save <<BR>>4. Exit Cytoscape and restart it<<BR>>5. Import galFiltered.sif and Import → Vizmap Property File…<<BR>>6. Change the visual style to the imported style||The node colours should change to those of the visual style that was saved|| || ||
||FM10.7||1. Select Export → Network as Graphics… <<BR>>2. Click Choose and type Yeast Network as the file name and click Save <<BR>>3. Leave the Format as PDF and Click OK <<BR>>4. Open Yeast Network.pdf in a PDF reader||The PDF should contain a screen shot of the portion of the network visible in the canvas|| || ||
||FM10.8||1. Repeat steps 1 & 2 from FM10.7 <<BR>>2. Select .PNG from the format menu and click OK <<BR>>3. Leave the bitmap settings as default and click OK <<BR>>4. Open the Yeast Network.png in a picture viewer||The PNG should contain a screen shot of the portion of the network visible in the canvas|| || ||
||FM10.9||Export of PSI-MI 1.0 under construction|| || || ||
||FM10.10||Export of PSI-MI 2.5 under construction|| || || ||