From 6598d3c4e8285e6aa52231784d1f3a67ddb3f9a3 Mon Sep 17 00:00:00 2001
From: Blaise deB Frederick <blaise.frederick@gmail.com>
Date: Tue, 31 Oct 2023 11:05:33 +0000
Subject: [PATCH] Added ability to invert noise regressor

---
 rapidtide/workflows/rapidtide.py        | 2 ++
 rapidtide/workflows/rapidtide_parser.py | 9 ++++++++-
 2 files changed, 10 insertions(+), 1 deletion(-)

diff --git a/rapidtide/workflows/rapidtide.py b/rapidtide/workflows/rapidtide.py
index 55bf9f222..cf224c46f 100755
--- a/rapidtide/workflows/rapidtide.py
+++ b/rapidtide/workflows/rapidtide.py
@@ -845,6 +845,8 @@ def rapidtide_main(argparsingfunc):
             dummy,
             dummy,
         ) = tide_io.readvectorsfromtextfile(optiondict["noisetimecoursespec"], onecol=True)
+        if optiondict["noiseinvert"]:
+            noisevec *= -1.0
         noisefreq = optiondict["noisefreq"]
         noisestarttime = optiondict["noisestarttime"]
         if noisefreq is None:
diff --git a/rapidtide/workflows/rapidtide_parser.py b/rapidtide/workflows/rapidtide_parser.py
index 79fe612b5..35ce0c067 100755
--- a/rapidtide/workflows/rapidtide_parser.py
+++ b/rapidtide/workflows/rapidtide_parser.py
@@ -1189,6 +1189,7 @@ def _get_parser():
         help=("Attempt to detect and remove respiratory signal that strays into " "the LFO band."),
         default=False,
     )
+
     experimental.add_argument(
         "--noisetimecourse",
         dest="noisetimecoursespec",
@@ -1229,7 +1230,6 @@ def _get_parser():
         ),
         default="auto",
     )
-
     experimental.add_argument(
         "--noisestart",
         dest="noisestarttime",
@@ -1243,6 +1243,13 @@ def _get_parser():
         ),
         default=0.0,
     )
+    experimental.add_argument(
+        "--noiseinvert",
+        dest="noiseinvert",
+        action="store_true",
+        help=("Invert noise regressor prior to alignment."),
+        default=False,
+    )
 
     experimental.add_argument(
         "--acfix",