Commit 38b0604c authored by Yi Sun's avatar Yi Sun
Browse files

added tests to idr tool

parent ef8c7264
......@@ -65,11 +65,48 @@ conn.close()
</outputs>
<tests>
<test>
<param name="image_id" value="imageIDs.txt" ftype="txt" />
<param name="dataset_metadata" value="dataset_metadata.txt" ftype="txt" />
<output_collection name="list_output" type="list">
<element name="data_im_dnaDamage_3059295.tiff" file="im_dnaDamage_3059295.tiff" ftype="tiff"/>
<element name="data_im_cellMorph_1844422.tiff" file="im_dnaDamage_3059295.tiff" ftype="tiff"/>
</output_collection>
</test>
</tests>
<help>
This tool downloads images from IDR repository.
This tool downloads images from IDR repository.
** Parameters **
**Image IDs**: a tab delimited file contains dataset name and imageID. The dataset names and imageID can be obtained from IDR aspera portal. Users are expected to build these two files correctly in order for the tool to work without errors
- for example:
dataset imageID
dnaDamage 3059295
cellMorph 1844422
secretion 1438653
mitoCheck 1579729
**Dataset Metadata File**: tab delimited file contains dataset, channelName, timepoint, cropX, cropY, cropH, cropW. dataset names need to match those in Image ID file.
- for example:
dataset channelName timepoint cropX cropY cropH cropW
dnaDamage Hoechst 33258 0 0 0 696 520
cellMorph 1 0 0 0 671 511
secretion nucleus-dapi 0 336 256 672 512
mitoCheck GFP 46 336 256 672 512
</help>
</tool>
dataset channelName timepoint cropX cropY cropH cropW
dnaDamage Hoechst 33258 0 0 0 696 520
cellMorph 1 0 0 0 671 511
dataset imageID
dnaDamage 3059295
cellMorph 1844422
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