From d3c895643b2d55c591ab5877266e1d5a4160da8b Mon Sep 17 00:00:00 2001
From: Fidel Alfaro Almagro <falmagro@fmrib.ox.ac.uk>
Date: Fri, 10 Mar 2023 10:49:48 +0000
Subject: [PATCH] Fixing syntax issues

---
 bip/pipelines/struct_T1/T1_QC_CNR_corners.py | 2 +-
 bip/pipelines/struct_T1/T1_QC_CNR_eyes.py    | 2 +-
 bip/pipelines/struct_T1/T1_QC_COG.py         | 1 +
 bip/pipelines/struct_T1/T1_brain_extract.py  | 4 ++--
 bip/pipelines/struct_T1/T1_defacing.py       | 3 ++-
 bip/pipelines/struct_T1/T1_sienax.py         | 1 +
 bip/pipelines/struct_swMRI/swMRI_proc.py     | 4 ++--
 7 files changed, 10 insertions(+), 7 deletions(-)

diff --git a/bip/pipelines/struct_T1/T1_QC_CNR_corners.py b/bip/pipelines/struct_T1/T1_QC_CNR_corners.py
index 0d75360..5a1f4cc 100755
--- a/bip/pipelines/struct_T1/T1_QC_CNR_corners.py
+++ b/bip/pipelines/struct_T1/T1_QC_CNR_corners.py
@@ -7,7 +7,7 @@
 # Author: Michiel Cottaar <michiel.cottaar@ndcn.ox.ac.uk>
 #
 # pylint: disable=C0103,E0602,C0114,C0115,C0116,R0913,R0914,R0915
-# pylint: disable=W0613
+# pylint: disable=W0613,R1704
 #
 
 import os.path as op
diff --git a/bip/pipelines/struct_T1/T1_QC_CNR_eyes.py b/bip/pipelines/struct_T1/T1_QC_CNR_eyes.py
index 8680100..8b06547 100755
--- a/bip/pipelines/struct_T1/T1_QC_CNR_eyes.py
+++ b/bip/pipelines/struct_T1/T1_QC_CNR_eyes.py
@@ -7,7 +7,7 @@
 # Author: Michiel Cottaar <michiel.cottaar@ndcn.ox.ac.uk>
 #
 # pylint: disable=C0103,E0602,C0114,C0115,C0116,R0913,R0914,R0915
-# pylint: disable=W0613
+# pylint: disable=W0613,R1704
 #
 
 import os.path as op
diff --git a/bip/pipelines/struct_T1/T1_QC_COG.py b/bip/pipelines/struct_T1/T1_QC_COG.py
index 7a24ae7..d255ef3 100755
--- a/bip/pipelines/struct_T1/T1_QC_COG.py
+++ b/bip/pipelines/struct_T1/T1_QC_COG.py
@@ -7,6 +7,7 @@
 # Author: Michiel Cottaar <michiel.cottaar@ndcn.ox.ac.uk>
 #
 # pylint: disable=C0103,E0602,C0114,C0115,C0116,R0913,R0914,R0915
+# pylint: disable=R1704
 #
 
 import os.path as op
diff --git a/bip/pipelines/struct_T1/T1_brain_extract.py b/bip/pipelines/struct_T1/T1_brain_extract.py
index 45178d3..da757e7 100755
--- a/bip/pipelines/struct_T1/T1_brain_extract.py
+++ b/bip/pipelines/struct_T1/T1_brain_extract.py
@@ -7,14 +7,14 @@
 # Author: Michiel Cottaar <michiel.cottaar@ndcn.ox.ac.uk>
 #
 # pylint: disable=C0103,E0602,C0114,C0115,C0116,R0913,R0914,R0915
-# pylint: disable=W0613
+# pylint: disable=W0613,R1704
 #
 
 import os.path as op
 import logging
 from shutil import copyfile
-from fsl import wrappers
 from bip.utils.log_utils import redirect_logging, tempdir, job_name
+from fsl import wrappers
 from pipe_tree import In, Out, Ref
 
 log = logging.getLogger(__name__)
diff --git a/bip/pipelines/struct_T1/T1_defacing.py b/bip/pipelines/struct_T1/T1_defacing.py
index eb40f4f..cfe70ba 100755
--- a/bip/pipelines/struct_T1/T1_defacing.py
+++ b/bip/pipelines/struct_T1/T1_defacing.py
@@ -7,12 +7,13 @@
 # Author: Michiel Cottaar <michiel.cottaar@ndcn.ox.ac.uk>
 #
 # pylint: disable=C0103,E0602,C0114,C0115,C0116,R0913,R0914,R0915
+# pylint: disable=R1704
 #
 
 import os.path as op
 import logging
-from fsl import wrappers
 from pipe_tree import In, Out, Ref
+from fsl import wrappers
 from bip.utils.log_utils import redirect_logging, tempdir, job_name
 
 log = logging.getLogger(__name__)
diff --git a/bip/pipelines/struct_T1/T1_sienax.py b/bip/pipelines/struct_T1/T1_sienax.py
index d8ad24d..034819d 100755
--- a/bip/pipelines/struct_T1/T1_sienax.py
+++ b/bip/pipelines/struct_T1/T1_sienax.py
@@ -7,6 +7,7 @@
 # Author: Michiel Cottaar <michiel.cottaar@ndcn.ox.ac.uk>
 #
 # pylint: disable=C0103,E0602,C0114,C0115,C0116,R0913,R0914,R0915
+# pylint: disable=R1704
 #
 
 import os
diff --git a/bip/pipelines/struct_swMRI/swMRI_proc.py b/bip/pipelines/struct_swMRI/swMRI_proc.py
index 5edc200..e7552ab 100755
--- a/bip/pipelines/struct_swMRI/swMRI_proc.py
+++ b/bip/pipelines/struct_swMRI/swMRI_proc.py
@@ -13,12 +13,12 @@
 import os.path as op
 import logging
 from shutil import copyfile
-from fsl import wrappers
 from pipe_tree import In, Out, Ref
+from gradunwarp.core.gradient_unwarp_apply import gradient_unwarp_apply
+from fsl import wrappers
 from bip.utils.log_utils import redirect_logging, job_name
 from bip.pipelines.struct_swMRI.swMRI_proc_fnc import combine_magnitude_coils
 from bip.pipelines.struct_swMRI.swMRI_proc_fnc import gen_filtered_phase
-from gradunwarp.core.gradient_unwarp_apply import gradient_unwarp_apply
 
 log = logging.getLogger(__name__)
 
-- 
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