read loopbio files and draw skeletons

Author: ver228

tierpsy/features/tierpsy_features/smooth.py

@@ -9,7 +9,7 @@
 from scipy.signal import savgol_filter
 
 
-def _h_resample_curve(curve, resampling_N=49, widths=None):
+def _h_resample_curve(curve, resampling_N=49, widths=None, interp_kind = 'linear'):
     '''Resample curve to have resampling_N equidistant segments
     I give width as an optional parameter since I want to use the 
     same interpolation as with the skeletons
@@ -30,8 +30,8 @@ def _h_resample_curve(curve, resampling_N=49, widths=None):
     if len(lengths) < 2 or len(curve) < 2:
         return None, None, None
 
-    fx = interp1d(lengths, curve[:, 0])
-    fy = interp1d(lengths, curve[:, 1])
+    fx = interp1d(lengths, curve[:, 0], kind = interp_kind)
+    fy = interp1d(lengths, curve[:, 1], kind = interp_kind)
 
     subLengths = np.linspace(0 + np.finfo(float).eps, tot_length, resampling_N)
 

tierpsy/gui/AnalysisProgress_ui.py

@@ -2,12 +2,14 @@
 
 # Form implementation generated from reading ui file 'AnalysisProgress.ui'
 #
-# Created by: PyQt5 UI code generator 5.9.2
+# Created by: PyQt5 UI code generator 5.12.3
 #
 # WARNING! All changes made in this file will be lost!
 
+
 from PyQt5 import QtCore, QtGui, QtWidgets
 
+
 class Ui_AnalysisProgress(object):
     def setupUi(self, AnalysisProgress):
         AnalysisProgress.setObjectName("AnalysisProgress")
@@ -33,4 +35,3 @@ def setupUi(self, AnalysisProgress):
     def retranslateUi(self, AnalysisProgress):
         _translate = QtCore.QCoreApplication.translate
         AnalysisProgress.setWindowTitle(_translate("AnalysisProgress", "Analysis Progress"))
-

tierpsy/gui/BatchProcessing_ui.py

@@ -2,12 +2,14 @@
 
 # Form implementation generated from reading ui file 'BatchProcessing.ui'
 #
-# Created by: PyQt5 UI code generator 5.9.2
+# Created by: PyQt5 UI code generator 5.12.3
 #
 # WARNING! All changes made in this file will be lost!
 
+
 from PyQt5 import QtCore, QtGui, QtWidgets
 
+
 class Ui_BatchProcessing(object):
     def setupUi(self, BatchProcessing):
         BatchProcessing.setObjectName("BatchProcessing")
@@ -199,4 +201,3 @@ def retranslateUi(self, BatchProcessing):
         self.p_unmet_requirements.setText(_translate("BatchProcessing", "Print Unmet Requirements"))
         self.p_only_summary.setText(_translate("BatchProcessing", "Only Display Progress Summary"))
         self.pushButton_start.setText(_translate("BatchProcessing", "START"))
-

tierpsy/gui/GetMaskParams_ui.py

@@ -2,12 +2,14 @@
 
 # Form implementation generated from reading ui file 'GetMaskParams.ui'
 #
-# Created by: PyQt5 UI code generator 5.9.2
+# Created by: PyQt5 UI code generator 5.12.3
 #
 # WARNING! All changes made in this file will be lost!
 
+
 from PyQt5 import QtCore, QtGui, QtWidgets
 
+
 class Ui_GetMaskParams(object):
     def setupUi(self, GetMaskParams):
         GetMaskParams.setObjectName("GetMaskParams")
@@ -452,4 +454,3 @@ def retranslateUi(self, GetMaskParams):
         self.pushButton_paramFile.setText(_translate("GetMaskParams", "Parameters File"))
         self.pushButton_next.setText(_translate("GetMaskParams", "Next Chunk"))
         self.pushButton_play.setText(_translate("GetMaskParams", "Play"))
-