Merge pull request #9 from antgonza/scaffolds_name

scaffolds sample_name

Author: charles-cowart

qp_spades/qp_spades.py

@@ -167,7 +167,7 @@ def spades(qclient, job_id, parameters, out_dir):
     outfiles = []
     for run_prefix, sname in prep_info.items():
         scaffold = join(out_dir, run_prefix, 'scaffolds.fasta')
-        new_scaffold = join(out_dir, run_prefix, f'{run_prefix}.fasta')
+        new_scaffold = join(out_dir, run_prefix, f'{sname}.fasta')
         if exists(scaffold):
             run(['mv', scaffold, new_scaffold], stdout=PIPE)
         else:

qp_spades/tests/test_spades.py

@@ -176,9 +176,9 @@ def test_spades(self):
         self.assertTrue(success)
         self.assertEqual(1, len(ainfo))
         self.assertEqual(ainfo[0].files,
-                         [(f'{out_dir}/S22205_S104/S22205_S104.fasta',
+                         [(f'{out_dir}/S22205_S104/1.SKB8.640193.fasta',
                            'preprocessed_fasta'),
-                          (f'{out_dir}/S22282_S102/S22282_S102.fasta',
+                          (f'{out_dir}/S22282_S102/1.SKD8.640184.fasta',
                            'preprocessed_fasta')])