- Convert the old size stored as human readable size to bytes size as…

… used in biomaj3

bin/biomaj-migrate.py

@@ -3,6 +3,7 @@
 import os
 import sys
 import argparse
+import bitmath
 import datetime
 import time
 import logging
@@ -15,6 +16,23 @@
 from biomaj.config import BiomajConfig
 from biomaj.workflow import UpdateWorkflow, RemoveWorkflow, Workflow
 
+def convert_size(size):
+    """Convert old size from BioMAJ 1.2.x to size in bytes"""
+    supported_units = ['K', 'M', 'G', 'T', 'P']
+    pattern_size = re.compile("^([\d,]+)(\w)$")
+    relmatch = pattern_size.match(size)
+    if relmatch:
+        if relmatch.group(2) in supported_units:
+            size = relmatch.group(1)
+            unit = relmatch.group(2)
+            unit += 'iB'
+            size = size.replace(',', '.')
+            try:
+                new_size = bitmath.parse_string(size + ' ' + unit).to_Byte()
+                return float(new_size)
+            except ValueError as err:
+                raise Exception("Can't convert size: %s" % str(err))
+    return 0
 
 def migrate_bank(cur, bank, history=False):
     """
@@ -44,7 +62,7 @@ def migrate_bank(cur, bank, history=False):
             'session': row[1],
             'creation': row[2],
             'remove': row[3],
-            'size': row[4],
+            'size': convert_size(row[4]),
             'release': row[5],
             'remoterelease': row[5],
             'logfile': row[6]