Mercurial > repos > bimib > cobraxy

diff COBRAxy/src/rps_generator.py @ 542:fcdbc81feb45 draft

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Uploaded
author francesco_lapi
date Sun, 26 Oct 2025 19:27:41 +0000
parents 2fb97466e404
children 5d5583dc6082
line wrap: on
line diff
--- a/COBRAxy/src/rps_generator.py	Sat Oct 25 15:20:55 2025 +0000
+++ b/COBRAxy/src/rps_generator.py	Sun Oct 26 19:27:41 2025 +0000
@@ -14,8 +14,12 @@
 
 from typing import Optional, List, Dict
 
-import utils.general_utils as utils
-import utils.reaction_parsing as reactionUtils
+try:
+    from .utils import general_utils as utils
+    from .utils import reaction_parsing as reactionUtils
+except:
+    import utils.general_utils as utils
+    import utils.reaction_parsing as reactionUtils
 
 ########################## argparse ##########################################
 ARGS :argparse.Namespace
@@ -38,9 +42,10 @@
         help = "path to input file containing the reactions")
 
     parser.add_argument('-td', '--tool_dir',
-                        type = str,
-                        required = True,
-                        help = 'your tool directory')
+        type = str,
+        default = os.path.dirname(os.path.abspath(__file__)),
+        help = 'your tool directory (default: auto-detected package location)')
+    
     parser.add_argument('-ol', '--out_log', 
                         help = "Output log")    
     parser.add_argument('-id', '--input',