From 22ad035d262ba9beeed28da3c02770a310130681 Mon Sep 17 00:00:00 2001
From: Paul McCarthy <pauldmccarthy@gmail.com>
Date: Mon, 12 Feb 2018 14:33:18 +0000
Subject: [PATCH] Suppress warnings in scripts
---
fsl/scripts/atlasq.py | 18 +++++++++++++++---
fsl/scripts/imcp.py | 10 ++++++++--
fsl/scripts/imglob.py | 7 ++++++-
fsl/scripts/immv.py | 10 ++++++++--
4 files changed, 37 insertions(+), 8 deletions(-)
diff --git a/fsl/scripts/atlasq.py b/fsl/scripts/atlasq.py
index e1aae0ecc..bd2459490 100644
--- a/fsl/scripts/atlasq.py
+++ b/fsl/scripts/atlasq.py
@@ -15,12 +15,24 @@ import itertools as it
import sys
import argparse
import textwrap
+import warnings
import logging
import numpy as np
-import fsl.data.atlases as fslatlases
-import fsl.version as fslversion
-import fsl.data.image as fslimage
+# if h5py <= 2.7.1 is installed,
+# it will be imported via nibabel,
+# and will cause a numpy warning
+# to be emitted.
+with warnings.catch_warnings():
+ warnings.filterwarnings("ignore", category=FutureWarning)
+ import fsl.data.image as fslimage
+
+# If wx is not present, then fsl.utils.platform
+# will complain that it is not present.
+logging.getLogger('fsl.utils.platform').setLevel(logging.ERROR)
+
+import fsl.data.atlases as fslatlases # noqa
+import fsl.version as fslversion # noqa
log = logging.getLogger(__name__)
diff --git a/fsl/scripts/imcp.py b/fsl/scripts/imcp.py
index 8bf15ba23..77482a28c 100755
--- a/fsl/scripts/imcp.py
+++ b/fsl/scripts/imcp.py
@@ -16,9 +16,15 @@ from __future__ import print_function
import os.path as op
import sys
+import warnings
+
import fsl.utils.path as fslpath
-import fsl.utils.imcp as imcp
-import fsl.data.image as fslimage
+
+# See atlasq.py for explanation
+with warnings.catch_warnings():
+ warnings.filterwarnings("ignore", category=FutureWarning)
+ import fsl.utils.imcp as imcp
+ import fsl.data.image as fslimage
usage = """Usage:
diff --git a/fsl/scripts/imglob.py b/fsl/scripts/imglob.py
index ba26af1fc..ed85e4120 100644
--- a/fsl/scripts/imglob.py
+++ b/fsl/scripts/imglob.py
@@ -12,8 +12,13 @@ NIFTI/ANALYZE image files.
from __future__ import print_function
import sys
+import warnings
import fsl.utils.path as fslpath
-import fsl.data.image as fslimage
+
+# See atlasq.py for explanation
+with warnings.catch_warnings():
+ warnings.filterwarnings("ignore", category=FutureWarning)
+ import fsl.data.image as fslimage
usage = """
diff --git a/fsl/scripts/immv.py b/fsl/scripts/immv.py
index b33d8ff7b..94c967409 100755
--- a/fsl/scripts/immv.py
+++ b/fsl/scripts/immv.py
@@ -17,9 +17,15 @@ from __future__ import print_function
import os.path as op
import sys
+import warnings
+
import fsl.utils.path as fslpath
-import fsl.utils.imcp as imcp
-import fsl.data.image as fslimage
+
+# See atlasq.py for explanation
+with warnings.catch_warnings():
+ warnings.filterwarnings("ignore", category=FutureWarning)
+ import fsl.utils.imcp as imcp
+ import fsl.data.image as fslimage
usage = """Usage:
--
GitLab