Mercurial > repos > dfornika > data_manager_build_mash_sketch

changeset 12:6df5ab590a1b draft default tip

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planemo upload for repository https://github.com/dfornika/galaxytools/tree/master/data_managers/data_manager_build_mash_sketch/ commit 423cf96266f6ac433052ff72edb1397502313010-dirty
author dfornika
date Thu, 25 Jul 2019 16:32:29 -0400
parents cc4b843d37f1
children
files data_manager/mash_build_sketch.py
diffstat 1 files changed, 5 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/data_manager/mash_build_sketch.py	Thu Jul 25 15:19:22 2019 -0400
+++ b/data_manager/mash_build_sketch.py	Thu Jul 25 16:32:29 2019 -0400
@@ -7,6 +7,7 @@
 import errno
 import json
 import os
+import shutil
 import string
 import subprocess
 import sys
@@ -33,12 +34,14 @@
             pass
         else:
             raise
-    
+
+    shutil.copyfile(mash_args['input'], os.path.join(target_directory, database_path, 'seqs.fasta'))
+          
     mash_sketch_args_list = [
         '-p', mash_args['threads'],
         '-k', mash_args['kmer_size'],
         '-s', mash_args['sketch_size'],
-        '-i', mash_args['input'],
+        '-i', 'seqs.fasta',
         '-o', 'sketch',
     ]