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nf-core · Jan 31, 2024 · 6970c85 · 6970c85
1 parent d4fa90d
commit 6970c85
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Showing 2 changed files with 3 additions and 5 deletions.
diff --git a/bin/check_samplesheet.py b/bin/check_samplesheet.py
@@ -247,13 +247,12 @@ def check_samplesheet(file_in, file_out, use_control):
     # Calculate the exact control/replicate id combo
     if use_control == "true":
         for group, reps in sorted(sample_run_dict.items()):
-
             # Calculate the ctrl group
             ctrl_group = None
             is_ctrl = False
             for replicate, info in sorted(reps.items()):
                 ctrl_group = info[0][2]
-                if ctrl_group == '':
+                if ctrl_group == "":
                     is_ctrl = True
                 break
 

diff --git a/bin/igv_files_to_session.py b/bin/igv_files_to_session.py
@@ -99,12 +99,11 @@ def igv_files_to_session(XMLOut, ListFile, Genome, GtfBed, PathPrefix=""):
             break
             fout.close()
 
-
     ## Construct groups
     groups = {}
     group_num = 1
     for ifile, colour in fileList:
-        group = os.path.basename(ifile).split('_R')[0]
+        group = os.path.basename(ifile).split("_R")[0]
         if group not in groups:
             groups[group] = group_num
             group_num = group_num + 1
@@ -170,7 +169,7 @@ def igv_files_to_session(XMLOut, ListFile, Genome, GtfBed, PathPrefix=""):
         elif extension in [".bw", ".bigwig", ".tdf", ".bedGraph", ".bedgraph"]:
             XMLStr += (
                 '\t\t<Track altColor="0,0,178" autoScale="true" autoscaleGroup="%s" clazz="org.broad.igv.track.DataSourceTrack" color="%s" '
-                % (groups[os.path.basename(ifile).split('_R')[0]], colour)
+                % (groups[os.path.basename(ifile).split("_R")[0]], colour)
             )
             XMLStr += 'displayMode="COLLAPSED" featureVisibilityWindow="-1" fontSize="12" height="100" '
             XMLStr += (