# WARNING: head commit changed in the meantime

Debug call exception when testing file format
Debug print output element.

src/jflow/component.py

@@ -635,9 +635,9 @@ class Component(object):
                 if isinstance(element[0], list):
                     for i in range(len(element)) : 
                         to_write+="List"+str(i+1)+": \n"
-                        to_write+="\n".join(element[i])+"\n"
+                        to_write+="\n".join(str(element[i]))+"\n"
                 else : 
-                    to_write+="\n".join(element)+"\n"
+                    to_write+="\n".join(str(element))+"\n"
         else :
             to_write+= element+"\n"
         if to_write != "" :

workflows/formats.py

@@ -33,7 +33,7 @@ def fastq(ifile):
             # only check the first 10 sequences
             if nb_seq == 10: break
     except:
-        raise jflow.InvalidFormatError("The provided file '" + ifile + "' is not a fastq file!")
+        raise jflow.exceptions.InvalidFormatError("The provided file '" + ifile + "' is not a fastq file!")
     
 def fasta(ifile):
     try:
@@ -44,7 +44,7 @@ def fasta(ifile):
              # only check the first 10 sequences
             if nb_seq == 10: break
     except:
-        raise jflow.InvalidFormatError("The provided file '" + ifile + "' is not a fasta file!")
+        raise jflow.exceptions.InvalidFormatError("The provided file '" + ifile + "' is not a fasta file!")
     
 def sff(ifile):
     try:
@@ -55,5 +55,5 @@ def sff(ifile):
             # only check the first 10 sequences
             if nb_seq == 10: break
     except:
-        raise jflow.InvalidFormatError("The provided file '" + ifile + "' is not a sff file!")
+        raise jflow.exceptions.InvalidFormatError("The provided file '" + ifile + "' is not a sff file!")
     
\ No newline at end of file