debug snakefile

02-demultiplex/Snakefile

@@ -23,10 +23,10 @@ include: "../00-rules/filtered.smk"
 ### Concatenate sequences from each sample of the same run
 rule cat_samples:
     input:
-        '03-cleaned/{run}*.c.r.l.u.fasta'
+        glob_wildcards('03-cleaned/{run}*.c.r.l.u.fasta'
     params:
         '03-cleaned/{run}*.c.r.l.u.fasta'
     output:
-         '../03-filtered/{run}.fasta'
+        '../03-filtered/{run}.fasta'
     shell:
-         '''cat {params} > {output}'''
\ No newline at end of file
+        '''cat {params} > {output}'''
\ No newline at end of file