tomwer 1.1.1__py3-none-any.whl → 1.2.0a0__py3-none-any.whl

orangecontrib/tomwer/widgets/reconstruction/TofuOW.py

@@ -28,23 +28,25 @@ __license__ = "MIT"
 __date__ = "10/01/2018"
 
 
+import copy
 import functools
 import logging
 import os
-import copy
-from silx.gui import qt
-from ..utils import WidgetLongProcessing
-from orangewidget import settings
-from orangewidget import gui
+
+from orangewidget import gui, settings
 from orangewidget.widget import Input, Output
+from silx.gui import qt
+
+import tomwer.core.process.reconstruction.lamino.tofu
 from orangecontrib.tomwer.orange.settings import CallbackSettingsHandler
 from tomwer.core.process.reconstruction.lamino import LaminoReconstruction
+from tomwer.core.scan.scanbase import TomwerScanBase
 from tomwer.gui.reconstruction.lamino.tofu import TofuWindow
 from tomwer.synctools.stacks.reconstruction.lamino import LaminoReconstructionStack
-import tomwer.core.process.reconstruction.lamino.tofu
-from tomwer.core.scan.scanbase import TomwerScanBase
 from tomwer.utils import docstring
+
 from ...orange.managedprocess import SuperviseOW
+from ..utils import WidgetLongProcessing
 
 _logger = logging.getLogger(__name__)
 

orangecontrib/tomwer/widgets/reconstruction/icons/nabu_2d.svg

@@ -14,11 +14,8 @@
    viewBox="0 0 48 48"
    version="1.1"
    id="SVGRoot"
-   inkscape:version="0.92.5 (2060ec1f9f, 2020-04-08)"
-   sodipodi:docname="nabu_2d.svg"
-   inkscape:export-filename="/media/payno/830add5c-f5d7-4db2-875e-03be4f0a67f0/dev/tomography/tomwer/orangecontrib/tomwer/widgets/reconstruction/icons/nabu_2d.png"
-   inkscape:export-xdpi="59.900002"
-   inkscape:export-ydpi="59.900002">
+   inkscape:version="0.92.4 (5da689c313, 2019-01-14)"
+   sodipodi:docname="nabu.svg">
   <defs
      id="defs815" />
   <sodipodi:namedview
@@ -29,14 +26,14 @@
      inkscape:pageopacity="0.0"
      inkscape:pageshadow="2"
      inkscape:zoom="5.3333333"
-     inkscape:cx="-96.821274"
-     inkscape:cy="34.925261"
+     inkscape:cx="-29.508774"
+     inkscape:cy="36.425261"
      inkscape:document-units="px"
      inkscape:current-layer="g1399"
      showgrid="false"
-     inkscape:window-width="1848"
-     inkscape:window-height="1136"
-     inkscape:window-x="72"
+     inkscape:window-width="1920"
+     inkscape:window-height="1016"
+     inkscape:window-x="0"
      inkscape:window-y="27"
      inkscape:window-maximized="1"
      inkscape:grid-bbox="true" />
@@ -48,7 +45,7 @@
         <dc:format>image/svg+xml</dc:format>
         <dc:type
            rdf:resource="http://purl.org/dc/dcmitype/StillImage" />
-        <dc:title />
+        <dc:title></dc:title>
       </cc:Work>
     </rdf:RDF>
   </metadata>

orangecontrib/tomwer/widgets/visualization/DataViewerOW.py

@@ -27,16 +27,16 @@ __authors__ = ["H. Payno"]
 __license__ = "MIT"
 __date__ = "21/07/2020"
 
-from silx.gui import qt
-from orangewidget import widget, gui
+import logging
+
+from orangewidget import gui, settings, widget
 from orangewidget.widget import Input
-from tomwer.gui.visualization.dataviewer import DataViewer
-from tomwer.core.scan.scanbase import TomwerScanBase
-from orangewidget import settings
-from tomwer.gui import utils
-from tomwer.gui import icons
+from silx.gui import qt
+
 import tomwer.core.process.visualization.dataviewer
-import logging
+from tomwer.core.scan.scanbase import TomwerScanBase
+from tomwer.gui import icons, utils
+from tomwer.gui.visualization.dataviewer import DataViewer
 
 _logger = logging.getLogger(__name__)
 

orangecontrib/tomwer/widgets/visualization/DiffViewerOW.py

@@ -27,13 +27,15 @@ __authors__ = ["H. Payno"]
 __license__ = "MIT"
 __date__ = "07/09/2020"
 
-from silx.gui import qt
-from orangewidget import widget, gui
+import logging
+
+from orangewidget import gui, widget
 from orangewidget.widget import Input
+from silx.gui import qt
+
+import tomwer.core.process.visualization.diffviewer
 from tomwer.core.scan.scanbase import TomwerScanBase
 from tomwer.gui.visualization.diffviewer import DiffFrameViewer
-import tomwer.core.process.visualization.diffviewer
-import logging
 
 _logger = logging.getLogger(__name__)
 

orangecontrib/tomwer/widgets/visualization/LivesliceOW.py

@@ -27,11 +27,12 @@ __authors__ = ["C. Nemoz", "H. Payno"]
 __license__ = "MIT"
 __date__ = "26/06/2018"
 
-from orangewidget import widget, gui
+from orangewidget import gui, widget
 from orangewidget.widget import Input
-from tomwer.core.utils import getFirstProjFile
-from tomwer.core.scan.scanbase import TomwerScanBase
+
 import tomwer.core.process.visualization.liveslice
+from tomwer.core.scan.scanbase import TomwerScanBase
+from tomwer.core.utils import getFirstProjFile
 
 try:
     from liveslice.gui.liveslice_gui import ReconstructionApp

orangecontrib/tomwer/widgets/visualization/NXtomoMetadataViewerOW.py

@@ -1,9 +1,10 @@
-from orangewidget import widget, gui
-from tomwer.gui.visualization.nxtomometadata import NXtomoMetadataViewer
+from orangewidget import gui, widget
 from orangewidget.widget import Input, Output
+from silx.gui import qt
+
 from tomwer.core.scan.hdf5scan import HDF5TomoScan
 from tomwer.core.scan.scanbase import TomwerScanBase
-from silx.gui import qt
+from tomwer.gui.visualization.nxtomometadata import NXtomoMetadataViewer
 
 
 class NXtomoMetadataViewerOW(widget.OWBaseWidget, openclass=True):

orangecontrib/tomwer/widgets/visualization/RadioStackOW.py

@@ -27,13 +27,15 @@ __authors__ = ["C. Nemoz", "H. Payno"]
 __license__ = "MIT"
 __date__ = "01/08/2018"
 
-from orangewidget import widget, gui
+import logging
+
+from orangewidget import gui, widget
 from orangewidget.widget import Input
+from silx.gui import qt
+
+import tomwer.core.process.visualization.radiostack
 from tomwer.core.scan.scanbase import TomwerScanBase
 from tomwer.gui.stacks import RadioStack
-import tomwer.core.process.visualization.radiostack
-from silx.gui import qt
-import logging
 
 logger = logging.getLogger(__name__)
 

orangecontrib/tomwer/widgets/visualization/SampleMovedOW.py

@@ -27,14 +27,16 @@ __authors__ = ["C. Nemoz", "H. Payno"]
 __license__ = "MIT"
 __date__ = "19/03/2018"
 
-from silx.gui import qt
-from orangewidget import widget, gui
+import logging
+import os
+
+from orangewidget import gui, widget
 from orangewidget.widget import Input
-from tomwer.gui.samplemoved import SampleMovedWidget
-from tomwer.core.scan.scanbase import TomwerScanBase
+from silx.gui import qt
+
 import tomwer.core.process.visualization.samplemoved
-import os
-import logging
+from tomwer.core.scan.scanbase import TomwerScanBase
+from tomwer.gui.samplemoved import SampleMovedWidget
 
 logger = logging.getLogger(__name__)
 

orangecontrib/tomwer/widgets/visualization/SinogramViewerOW.py

@@ -27,13 +27,16 @@ __authors__ = ["C. Nemoz", "H. Payno"]
 __license__ = "MIT"
 __date__ = "01/08/2018"
 
-from orangewidget import widget, gui
+import logging
+
+from orangewidget import gui, widget
 from orangewidget.widget import Input
+
+import tomwer.core.process.visualization.sinogramviewer
 from tomwer.core.scan.scanbase import TomwerScanBase
 from tomwer.gui.visualization.sinogramviewer import SinogramViewer
-import tomwer.core.process.visualization.sinogramviewer
+
 from ..utils import WidgetLongProcessing
-import logging
 
 logger = logging.getLogger(__name__)
 

orangecontrib/tomwer/widgets/visualization/SliceStackOW.py

@@ -28,13 +28,15 @@ __license__ = "MIT"
 __date__ = "04/05/2018"
 
 
-from orangewidget import widget, gui
+import logging
+
+from orangewidget import gui, widget
 from orangewidget.widget import Input
-from tomwer.gui.stacks import SliceStack
-from tomwer.core.scan.scanbase import TomwerScanBase
-import tomwer.core.process.visualization.slicestack
 from silx.gui import qt
-import logging
+
+import tomwer.core.process.visualization.slicestack
+from tomwer.core.scan.scanbase import TomwerScanBase
+from tomwer.gui.stacks import SliceStack
 
 logger = logging.getLogger(__name__)
 

orangecontrib/tomwer/widgets/visualization/VolumeViewerOW.py

@@ -28,13 +28,14 @@ __license__ = "MIT"
 __date__ = "21/07/2020"
 
 import pytest
-from silx.gui import qt
-from orangewidget import widget, gui
+from orangewidget import gui, widget
 from orangewidget.widget import Input
-from tomwer.gui.visualization.volumeviewer import VolumeViewer
-from tomwer.core.scan.scanbase import TomwerScanBase
+from silx.gui import qt
+
 import tomwer.core.process.visualization.volumeviewer
+from tomwer.core.scan.scanbase import TomwerScanBase
 from tomwer.core.volume.volumebase import TomwerVolumeBase
+from tomwer.gui.visualization.volumeviewer import VolumeViewer
 
 
 @pytest.mark.skip("Fail on CI")

tomwer/__init__.py

@@ -23,7 +23,7 @@
 #
 # ###########################################################################*/
 
-from __future__ import absolute_import, print_function, division
+from __future__ import absolute_import, division, print_function
 
 __authors__ = ["H. Payno"]
 __license__ = "MIT"

tomwer/__main__.py

@@ -36,8 +36,9 @@ __date__ = "10/11/2020"
 
 
 import sys
-from tomwer.utils import Launcher
+
 import tomwer.version
+from tomwer.utils import Launcher
 
 
 def main():

tomwer/app/axis.py

@@ -1,25 +1,29 @@
 #!/usr/bin/env python
 # -*- coding: utf-8 -*-
 
-import sys
 import argparse
-from silx.gui import qt
-import signal
 import functools
-from tomwer.gui import icons
-from tomwer.gui.utils.splashscreen import getMainSplashScreen
-from tomwer.gui.reconstruction.axis import AxisWindow
-from tomwer.core.scan.scanfactory import ScanFactory
-from tomwer.synctools.axis import QAxisRP
-from tomwer.core.process.reconstruction.axis.axis import AxisProcess, NoAxisUrl
-from tomwer.core.process.reconstruction.axis.axis import AxisMode
+import logging
+import signal
+import sys
+
+from silx.gui import qt
+from silx.io.url import DataUrl
+
+from tomwer.core.process.reconstruction.axis.axis import (
+    AxisMode,
+    AxisProcess,
+    NoAxisUrl,
+)
 from tomwer.core.process.reconstruction.darkref.darkrefs import (
     requires_reduced_dark_and_flat,
 )
+from tomwer.core.scan.scanfactory import ScanFactory
 from tomwer.core.utils.resource import increase_max_number_file
-from silx.io.url import DataUrl
-import logging
-
+from tomwer.gui import icons
+from tomwer.gui.reconstruction.axis import AxisWindow
+from tomwer.gui.utils.splashscreen import getMainSplashScreen
+from tomwer.synctools.axis import QAxisRP
 
 logging.basicConfig(level=logging.WARNING)
 _logger = logging.getLogger(__name__)
@@ -113,7 +117,7 @@ def main(argv):
     parser.add_argument(
         "--mode",
         default=None,
-        help="Use a specific mode. Available modes are {}" "".format(AxisMode.values()),
+        help=f"Use a specific mode. Available modes are {AxisMode.values()}",
     )
     parser.add_argument(
         "--full-image",

tomwer/app/canvas.py

@@ -1,11 +1,13 @@
+import logging
+import platform
 import sys
+
+import psutil
+import tomoscan.version
+
+import tomwer.version
 from tomwer.app.canvas_launcher.mainwindow import OMain as QMain
 from tomwer.core.utils.resource import increase_max_number_file
-import tomwer.version
-import tomoscan.version
-import platform
-import psutil
-import logging
 
 _logger = logging.getLogger(__name__)
 

tomwer/app/canvas_launcher/config.py

@@ -28,17 +28,19 @@ __license__ = "MIT"
 __date__ = "14/12/2021"
 
 
-from orangewidget.workflow import config
-import tomwer.version
-from .splash import splash_screen, getIcon
-from tomwer.gui import icons
 import pkg_resources
-from silx.gui import qt
 from orangecanvas.application.outputview import (
     TerminalTextDocument as _TerminalTextDocument,
 )
-from . import environ
 from orangewidget.settings import set_widget_settings_dir_components
+from orangewidget.workflow import config
+from silx.gui import qt
+
+import tomwer.version
+from tomwer.gui import icons
+
+from . import environ
+from .splash import getIcon, splash_screen
 from .widgetsscheme import WidgetsScheme
 
 

tomwer/app/canvas_launcher/environ.py

@@ -40,11 +40,10 @@ orangerc.cfg
     canvas_settings_dir = %(prefix)s/config/%(name)s/canvas
 
 """
+import configparser
 import os
 import sys
 import sysconfig
-import configparser
-
 from typing import Optional
 
 import tomwer

tomwer/app/canvas_launcher/mainwindow.py

@@ -1,31 +1,34 @@
-from orangewidget.workflow.mainwindow import OWCanvasMainWindow as _MainWindow
-from orangecanvas.application.canvasmain import DockWidget
-from processview.gui.processmanager import ProcessManagerWindow
-from silx.gui import qt
 import argparse
-from orangecanvas.main import Main as ocMain
+import logging
+import os
+import shutil
 import signal
-import pyqtgraph
+import sys
+from contextlib import closing
 from logging.handlers import RotatingFileHandler
-from orangewidget.workflow.config import data_dir_base
-from orangewidget.workflow.errorreporting import handle_exception
-from orangewidget.workflow import config
-from orangecanvas.document.usagestatistics import UsageStatistics
+from urllib.request import urlopen
+from xml.sax.saxutils import escape
+
+import pyqtgraph
+from orangecanvas.application.canvasmain import DockWidget
 from orangecanvas.application.outputview import (
-    TextStream,
     ExceptHook,
     TerminalTextDocument,
+    TextStream,
 )
-from xml.sax.saxutils import escape
-import logging
-import os
-import shutil
+from orangecanvas.document.usagestatistics import UsageStatistics
+from orangecanvas.main import Main as ocMain
+from orangewidget.workflow import config
+from orangewidget.workflow.config import data_dir_base
+from orangewidget.workflow.errorreporting import handle_exception
+from orangewidget.workflow.mainwindow import OWCanvasMainWindow as _MainWindow
+from processview.gui.processmanager import ProcessManagerWindow
+from silx.gui import qt
+
+import tomwer.version
 from tomwer.core.log.logger import TomwerLogger
-import sys
-from contextlib import closing
+
 from .config import TomwerConfig, TomwerSplashScreen
-import tomwer.version
-from urllib.request import urlopen
 
 try:
     import nabu
@@ -348,9 +351,7 @@ def check_is_latest_release() -> bool:
     try:
         version_file_html = urlopen(url, data=None, timeout=10)
     except Exception as e:
-        _logger.warning(
-            "Fail to load version of the latest release." " Reason is {}".format(e)
-        )
+        _logger.warning(f"Fail to load version of the latest release. Reason is {e}")
         return True
     else:
         latest_release_version = None

tomwer/app/canvas_launcher/splash.py

@@ -1,4 +1,5 @@
 from silx.gui import qt
+
 from tomwer.gui import icons
 
 

tomwer/app/canvas_launcher/widgetsscheme.py

@@ -1,9 +1,9 @@
+from orangecanvas.scheme import Scheme
+from orangewidget.settings import SettingsPrinter
+from orangewidget.workflow.widgetsscheme import WidgetManager
 from orangewidget.workflow.widgetsscheme import (
     WidgetsSignalManager as _WidgetsSignalManager,
-    WidgetManager,
 )
-from orangecanvas.scheme import Scheme
-from orangewidget.settings import SettingsPrinter
 from silx.gui import qt
 
 

tomwer/app/darkref.py

@@ -5,10 +5,10 @@ import argparse
 import logging
 import signal
 import sys
-from tomwer.core.scan.scanfactory import ScanFactory
-from tomwer.core.process.reconstruction.darkref.params import ReduceMethod
-from tomwer.core.process.reconstruction.darkref.params import DKRFRP
+
 from tomwer.core.process.reconstruction.darkref.darkrefs import DarkRefs
+from tomwer.core.process.reconstruction.darkref.params import DKRFRP, ReduceMethod
+from tomwer.core.scan.scanfactory import ScanFactory
 from tomwer.core.utils.resource import increase_max_number_file
 
 logging.basicConfig(level=logging.WARNING)
@@ -31,18 +31,19 @@ def _exec_without_interaction(scan, dark_method, flat_method, overwrite):
             "dark_ref_params": recons_params,
         }
     )
-    _logger.info("Start processing of {}".format(str(scan)))
+    _logger.info(f"Start processing of {scan}")
     dark_ref.run()
-    _logger.info("End processing of {}".format(str(scan)))
+    _logger.info(f"End processing of {scan}")
     return 0
 
 
 def _exec_with_interaction(scan, dark_method, flat_method, overwrite):
     from silx.gui import qt
+
     from tomwer.gui import icons
     from tomwer.gui.reconstruction.darkref.darkrefwidget import DarkRefWidget
-    from tomwer.synctools.darkref import QDKRFRP
     from tomwer.gui.utils.splashscreen import getMainSplashScreen
+    from tomwer.synctools.darkref import QDKRFRP
 
     class _DarkRefWidgetRunnable(DarkRefWidget):
         sigScanReady = qt.Signal(str)

tomwer/app/darkrefpatch.py

@@ -1,17 +1,19 @@
 #!/usr/bin/env python
 # -*- coding: utf-8 -*-
 
+import argparse
 import logging
+import signal
 import sys
+
+from nxtomomill.utils import add_dark_flat_nx_file
 from silx.gui import qt
-import argparse
-from tomwer.gui import icons
-from tomwer.gui.utils.splashscreen import getMainSplashScreen
-from tomwer.gui.edit.dkrfpatch import DarkRefPatchWidget
+
 from tomwer.core.scan.scanfactory import ScanFactory
-from nxtomomill.utils import add_dark_flat_nx_file
 from tomwer.core.utils.resource import increase_max_number_file
-import signal
+from tomwer.gui import icons
+from tomwer.gui.edit.dkrfpatch import DarkRefPatchWidget
+from tomwer.gui.utils.splashscreen import getMainSplashScreen
 
 logging.basicConfig(level=logging.WARNING)
 _logger = logging.getLogger(__name__)

tomwer/app/diffframe.py

@@ -1,16 +1,18 @@
 #!/usr/bin/env python
 # -*- coding: utf-8 -*-
 
+import argparse
 import logging
+import signal
 import sys
+
 from silx.gui import qt
-import argparse
+
+from tomwer.core.scan.scanfactory import ScanFactory
+from tomwer.core.utils.resource import increase_max_number_file
 from tomwer.gui import icons
 from tomwer.gui.utils.splashscreen import getMainSplashScreen
-from tomwer.core.scan.scanfactory import ScanFactory
 from tomwer.gui.visualization.diffviewer import DiffFrameViewer
-from tomwer.core.utils.resource import increase_max_number_file
-import signal
 
 logging.basicConfig(level=logging.WARNING)
 _logger = logging.getLogger(__name__)

tomwer/app/imagekeyeditor.py

@@ -1,18 +1,20 @@
 #!/usr/bin/env python
 # -*- coding: utf-8 -*-
 
+import argparse
 import logging
+import signal
 import sys
+
+from nxtomomill.utils import change_image_key_control
 from silx.gui import qt
-import argparse
-from tomwer.gui import icons
-from tomwer.gui.utils.splashscreen import getMainSplashScreen
-from tomwer.core.scan.hdf5scan import HDF5TomoScan
 from tomoscan.esrf.scan.hdf5scan import ImageKey
-from tomwer.gui.edit.imagekeyeditor import ImageKeyDialog as _ImageKeyDialog
-from nxtomomill.utils import change_image_key_control
+
+from tomwer.core.scan.hdf5scan import HDF5TomoScan
 from tomwer.core.utils.resource import increase_max_number_file
-import signal
+from tomwer.gui import icons
+from tomwer.gui.edit.imagekeyeditor import ImageKeyDialog as _ImageKeyDialog
+from tomwer.gui.utils.splashscreen import getMainSplashScreen
 
 logging.basicConfig(level=logging.WARNING)
 _logger = logging.getLogger(__name__)
@@ -43,9 +45,7 @@ class ImageKeyDialog(_ImageKeyDialog):
                 filter(lambda item: item[1] is image_key_type, modifications.items())
             )
             frame_indexes = tuple(frame_indexes_dict.keys())
-            _logger.warning(
-                "will modify {} to {}".format(frame_indexes, image_key_type)
-            )
+            _logger.warning(f"will modify {frame_indexes} to {image_key_type}")
             change_image_key_control(
                 file_path=self._scan.master_file,
                 entry=self._scan.entry,

tomwer/app/imagekeyupgrader.py

@@ -1,19 +1,21 @@
 #!/usr/bin/env python
 # -*- coding: utf-8 -*-
 
+import argparse
 import logging
+import signal
 import sys
+
 from silx.gui import qt
-import argparse
-from tomwer.gui import icons
-from tomwer.gui.utils.splashscreen import getMainSplashScreen
+
+from tomwer.core.process.edit.imagekeyeditor import ImageKeyUpgraderTask
 from tomwer.core.scan.hdf5scan import HDF5TomoScan
+from tomwer.core.utils.resource import increase_max_number_file
+from tomwer.gui import icons
 from tomwer.gui.edit.imagekeyeditor import (
     ImageKeyUpgraderWidget as _ImageKeyUpgraderWidget,
 )
-from tomwer.core.process.edit.imagekeyeditor import ImageKeyUpgraderTask
-from tomwer.core.utils.resource import increase_max_number_file
-import signal
+from tomwer.gui.utils.splashscreen import getMainSplashScreen
 
 logging.basicConfig(level=logging.WARNING)
 _logger = logging.getLogger(__name__)