From 06ce8c4edb4841d3f0363a53e09d12cb90e2c9a2 Mon Sep 17 00:00:00 2001
From: Thomas Duigou <thomas.duigou@inrae.fr>
Date: Thu, 24 Feb 2022 16:42:14 +0100
Subject: [PATCH] fix(#4): remove unused mwmax_cof argument

---
 README.md                        | 1 -
 retropath2_wrapper/Args.py       | 1 -
 retropath2_wrapper/RetroPath2.py | 4 +---
 retropath2_wrapper/__main__.py   | 2 +-
 4 files changed, 2 insertions(+), 6 deletions(-)

diff --git a/README.md b/README.md
index 3b2af36..7b3599a 100644
--- a/README.md
+++ b/README.md
@@ -61,7 +61,6 @@ r_code = retropath2(
     dmin=0,
     dmax=100,
     mwmax_source=1000,
-    mwmax_cof=1000,
     )
 ```
 
diff --git a/retropath2_wrapper/Args.py b/retropath2_wrapper/Args.py
index e654881..dee1c52 100644
--- a/retropath2_wrapper/Args.py
+++ b/retropath2_wrapper/Args.py
@@ -101,7 +101,6 @@ def _add_arguments(parser):
     parser.add_argument('--dmin'         , type=int, default=0)
     parser.add_argument('--dmax'         , type=int, default=1000)
     parser.add_argument('--mwmax_source' , type=int, default=1000)
-    parser.add_argument('--mwmax_cof'    , type=int, default=1000)
     parser.add_argument(
         '--timeout',
         type=int,
diff --git a/retropath2_wrapper/RetroPath2.py b/retropath2_wrapper/RetroPath2.py
index 14e21bc..6e5ff21 100644
--- a/retropath2_wrapper/RetroPath2.py
+++ b/retropath2_wrapper/RetroPath2.py
@@ -130,7 +130,7 @@ def retropath2(
     max_steps: int = 3,
     topx: int = 100,
     dmin: int = 0, dmax: int = 100,
-    mwmax_source: int = 1000, mwmax_cof: int = 1000,
+    mwmax_source: int = 1000,
     timeout: int = DEFAULT_TIMEOUT,
     logger: Logger = getLogger(__name__)
 ) -> Tuple[str, Dict]:
@@ -151,7 +151,6 @@ def retropath2(
         'dmin'         : dmin,
         'dmax'         : dmax,
         'mwmax_source' : mwmax_source,
-        'mwmax_cof'    : mwmax_cof
     }
     logger.debug('rp2_params: ' + str(rp2_params))
 
@@ -623,7 +622,6 @@ def call_knime(
          + ' -workflow.variable=input.rulesfile,"'         + files['rules']              + '",String' \
          + ' -workflow.variable=input.topx,"'              + str(params['topx'])         + '",int' \
          + ' -workflow.variable=input.mwmax-source,"'      + str(params['mwmax_source']) + '",int' \
-         + ' -workflow.variable=input.mwmax-cof,"'         + str(params['mwmax_cof'])    + '",int' \
          + ' -workflow.variable=output.dir,"'              + files['outdir']             + '",String' \
          + ' -workflow.variable=output.solutionfile,"'     + files['results']            + '",String' \
          + ' -workflow.variable=output.sourceinsinkfile,"' + files['src-in-sk']          + '",String'
diff --git a/retropath2_wrapper/__main__.py b/retropath2_wrapper/__main__.py
index 6e6264a..238b539 100644
--- a/retropath2_wrapper/__main__.py
+++ b/retropath2_wrapper/__main__.py
@@ -105,7 +105,7 @@ def _cli():
         sink_file=args.sink_file, source_file=args.source_file, rules_file=args.rules_file,
         outdir=args.outdir,
         kvars=kvars,
-        max_steps=args.max_steps, topx=args.topx, dmin=args.dmin, dmax=args.dmax, mwmax_source=args.mwmax_source, mwmax_cof=args.mwmax_cof,
+        max_steps=args.max_steps, topx=args.topx, dmin=args.dmin, dmax=args.dmax, mwmax_source=args.mwmax_source,
         rp2_version=args.rp2_version,
         timeout=args.timeout,
         logger=logger