sort output before merge

broadinstitute · Apr 22, 2024 · a942592 · a942592
1 parent 9c7439c
commit a942592
Showing 1 changed file with 7 additions and 1 deletion.
diff --git a/PECGS-QUICviz/QUICviz.wdl b/PECGS-QUICviz/QUICviz.wdl
@@ -100,8 +100,14 @@ task mergeImages {
         import glob
         import os
 
+#        with open(f"output/~{SampleID}_~{TumorType}_QUICviz.pdf","wb") as f:
+#            f.write(img2pdf.convert(glob.glob("output/images/*.png")))
+
+        # Get list of PNG files sorted
+        png_files = sorted(glob.glob("output/images/*.png"), key=lambda x: int(os.path.basename(x).split('.')[0]))
+
         with open(f"output/~{SampleID}_~{TumorType}_QUICviz.pdf","wb") as f:
-            f.write(img2pdf.convert(glob.glob("output/images/*.png")))
+            f.write(img2pdf.convert(png_files))
 
         CODE
     >>>