diff --git a/components/isceobj/Alos2Proc/runDownloadDem.py b/components/isceobj/Alos2Proc/runDownloadDem.py
index 8e822a4..255ba0a 100644
--- a/components/isceobj/Alos2Proc/runDownloadDem.py
+++ b/components/isceobj/Alos2Proc/runDownloadDem.py
@@ -97,7 +97,7 @@ def runDownloadDem(self):
         #runCmd(cmd)
         #cmd = 'rm *.log'
         #runCmd(cmd)
-        
+
         #replace the above system calls with function calls
         imagePathXml((glob.glob('swbdLat_*_*_Lon_*_*.wbd'))[0], fullPath=True)
         filesRemoved = glob.glob('*.log')
@@ -132,9 +132,9 @@ def downloadDem(bbox, demType='version3', resolution=1, fillingValue=-32768, out
 
     if demType == 'version3':
         if resolution == 1:
-            ds._url1 = 'http://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL1.003/2000.02.11'
+            ds._url1 = 'https://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL1.003/2000.02.11'
         else:
-            ds._url3 = 'http://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL3.003/2000.02.11'
+            ds._url3 = 'https://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL3.003/2000.02.11'
     elif demType == 'nasadem':
         resolution = 1
         #this url is included in the module
diff --git a/components/iscesys/DataManager/Dem1Manager.py b/components/iscesys/DataManager/Dem1Manager.py
index d4479cb..41b2cd8 100755
--- a/components/iscesys/DataManager/Dem1Manager.py
+++ b/components/iscesys/DataManager/Dem1Manager.py
@@ -2,19 +2,19 @@
 
 #~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 # Copyright 2012 California Institute of Technology. ALL RIGHTS RESERVED.
-# 
+#
 # Licensed under the Apache License, Version 2.0 (the "License");
 # you may not use this file except in compliance with the License.
 # You may obtain a copy of the License at
-# 
+#
 # http://www.apache.org/licenses/LICENSE-2.0
-# 
+#
 # Unless required by applicable law or agreed to in writing, software
 # distributed under the License is distributed on an "AS IS" BASIS,
 # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 # See the License for the specific language governing permissions and
 # limitations under the License.
-# 
+#
 # United States Government Sponsorship acknowledged. This software is subject to
 # U.S. export control laws and regulations and has been classified as 'EAR99 NLR'
 # (No [Export] License Required except when exporting to an embargoed country,
@@ -47,10 +47,10 @@ DATA_EXT = Component.Parameter('_dataExt',
     mandatory = False,
     doc = 'Extension of the data such as .hgt')
 URL = Component.Parameter('_url',
-    public_name = 'URL',default = 'http://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL1.003/2000.02.11',
+    public_name = 'URL',default = 'https://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL1.003/2000.02.11',
     type = str,
     mandatory = False,
-    doc = "Url for the high resolution DEM.") 
+    doc = "Url for the high resolution DEM.")
 DTYPE = Component.Parameter('_dtype',
     public_name = 'dtype',
     default = 'SHORT',
@@ -95,7 +95,7 @@ class Dem1Manager(SRTMManager):
             self.outputFile = self.defaultName([min(lats[0],lats[1]),max(lats[0],lats[1]),
                                                 min(lons[0],lons[1]),max(lons[0],lons[1])])
         return super(Dem1Manager,self).stitch(lats,lons)
-       
+
     ## Corrects the self._image from EGM96 to WGS84 and viceversa.
     #@param image \c Image if provided is used instead of the instance attribute self._image
     #@param conversionType \c int -1 converts from  EGM96 to WGS84, 1 converts from  WGS84 to EGM96
@@ -107,7 +107,7 @@ class Dem1Manager(SRTMManager):
             )
         cg = Correct_geoid_i2_srtm()
         return cg(image,conversionType) if image else cg(self._image,conversionType)
-         
+
     def createImage(self,lats,lons,filename):
         img = createDemImage()
         lons = np.sort(lons)
@@ -118,7 +118,7 @@ class Dem1Manager(SRTMManager):
         img.coord2.coordStart = np.sort(lats)[-1]
         img.coord2.coordDelta = -1./self._tileWidth
         return img
-    
+
     def defaultName(self,snwe):
         latMin = np.floor(snwe[0])
         latMax = np.ceil(snwe[1])
@@ -141,4 +141,3 @@ class Dem1Manager(SRTMManager):
     def updateParameters(self):
         self.extendParameterList(SRTMManager,Dem1Manager)
         super(Dem1Manager,self).updateParameters()
-   
diff --git a/components/iscesys/DataManager/Dem3Manager.py b/components/iscesys/DataManager/Dem3Manager.py
index 4fd0fcc..c032457 100755
--- a/components/iscesys/DataManager/Dem3Manager.py
+++ b/components/iscesys/DataManager/Dem3Manager.py
@@ -2,19 +2,19 @@
 
 #~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 # Copyright 2012 California Institute of Technology. ALL RIGHTS RESERVED.
-# 
+#
 # Licensed under the Apache License, Version 2.0 (the "License");
 # you may not use this file except in compliance with the License.
 # You may obtain a copy of the License at
-# 
+#
 # http://www.apache.org/licenses/LICENSE-2.0
-# 
+#
 # Unless required by applicable law or agreed to in writing, software
 # distributed under the License is distributed on an "AS IS" BASIS,
 # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 # See the License for the specific language governing permissions and
 # limitations under the License.
-# 
+#
 # United States Government Sponsorship acknowledged. This software is subject to
 # U.S. export control laws and regulations and has been classified as 'EAR99 NLR'
 # (No [Export] License Required except when exporting to an embargoed country,
@@ -43,10 +43,10 @@ EXTRA = Component.Parameter('_extra',
           +' otherwise if no value is provided is then interpreted as None by the xml reader.')
 
 URL = Component.Parameter('_url',
-    public_name = 'URL',default = 'http://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL3.003/2000.02.11',
+    public_name = 'URL',default = 'https://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL3.003/2000.02.11',
     type = str,
     mandatory = False,
-    doc = "Url for the high resolution DEM.") 
+    doc = "Url for the high resolution DEM.")
 
 TILE_SIZE = Component.Parameter('_tileSize',
     public_name = 'tileSize',
@@ -64,8 +64,8 @@ class Dem3Manager(Dem1Manager):
                        URL,
                        TILE_SIZE
                        ) + Dem1Manager.parameter_list
-        
-    
+
+
     def __init__(self,family = '', name = ''):
         self.parameter_list = self.parameter_list + super(Dem1Manager,self).parameter_list
         self.updateParameters()
@@ -74,4 +74,3 @@ class Dem3Manager(Dem1Manager):
     def updateParameters(self):
         self.extendParameterList(Dem1Manager,Dem3Manager)
         super(Dem3Manager,self).updateParameters()
-   
diff --git a/components/iscesys/DataManager/SWBDManager.py b/components/iscesys/DataManager/SWBDManager.py
index 1c8e461..e73444a 100755
--- a/components/iscesys/DataManager/SWBDManager.py
+++ b/components/iscesys/DataManager/SWBDManager.py
@@ -2,19 +2,19 @@
 
 #~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 # Copyright 2012 California Institute of Technology. ALL RIGHTS RESERVED.
-# 
+#
 # Licensed under the Apache License, Version 2.0 (the "License");
 # you may not use this file except in compliance with the License.
 # You may obtain a copy of the License at
-# 
+#
 # http://www.apache.org/licenses/LICENSE-2.0
-# 
+#
 # Unless required by applicable law or agreed to in writing, software
 # distributed under the License is distributed on an "AS IS" BASIS,
 # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 # See the License for the specific language governing permissions and
 # limitations under the License.
-# 
+#
 # United States Government Sponsorship acknowledged. This software is subject to
 # U.S. export control laws and regulations and has been classified as 'EAR99 NLR'
 # (No [Export] License Required except when exporting to an embargoed country,
@@ -45,10 +45,10 @@ DATA_EXT = Component.Parameter('_dataExt',
     mandatory = False,
     doc = 'Extension of the data such as .raw')
 URL = Component.Parameter('_url',
-    public_name = 'URL',default = 'http://e4ftl01.cr.usgs.gov/MEASURES/SRTMSWBD.003/2000.02.11',
+    public_name = 'URL',default = 'https://e4ftl01.cr.usgs.gov/MEASURES/SRTMSWBD.003/2000.02.11',
     type = str,
     mandatory = False,
-    doc = "Url for the high resolution water body mask") 
+    doc = "Url for the high resolution water body mask")
 DTYPE = Component.Parameter('_dtype',
     public_name = 'dtype',
     default = 'BYTE',
@@ -85,7 +85,7 @@ class SWBDManager(SRTMManager):
             self.outputFile = self.defaultName([min(lats[0],lats[1]),max(lats[0],lats[1]),
                                                 min(lons[0],lons[1]),max(lons[0],lons[1])])
         super(SWBDManager,self).stitch(lats,lons)
-        
+
     def createImage(self,lats,lons,filename):
         img = createImage()
         lons = np.sort(lons)
@@ -97,7 +97,7 @@ class SWBDManager(SRTMManager):
         img.coord2.coordDelta = -1./self._tileWidth
         img.dataType = self._dtype
         return img
-    
+
     def defaultName(self,snwe):
         latMin = np.floor(snwe[0])
         latMax = np.ceil(snwe[1])
@@ -120,4 +120,3 @@ class SWBDManager(SRTMManager):
     def updateParameters(self):
         self.extendParameterList(SRTMManager,SWBDManager)
         super(SWBDManager,self).updateParameters()
-   
diff --git a/contrib/stack/alosStack/alosStack.xml b/contrib/stack/alosStack/alosStack.xml
index 2667b47..06ca4a4 100644
--- a/contrib/stack/alosStack/alosStack.xml
+++ b/contrib/stack/alosStack/alosStack.xml
@@ -16,7 +16,7 @@
 
     <!--=========================================================================================
     See also comments of parameters "number of range looks ion" and "number of azimuth looks ion"
-    below to set a smaller number of looks to avoid phase aliasing in some areas (such as edges of 
+    below to set a smaller number of looks to avoid phase aliasing in some areas (such as edges of
     Tibetan Plateau, where there might be strong tropospheric variations due to large height
     differences).
     ==========================================================================================-->
@@ -26,25 +26,25 @@
 <!--=====================================================================================================
                                     instructions for ALOS-2 stack processor
 
-This is the input file of ALOS-2 stack processor. Below are all parameters users can set. 
-Instructions on how to set these parameters are also provided. Parameter default values are shown in the 
-brackets. Remove the first four characters and the last three characters in a parameter line to set a 
+This is the input file of ALOS-2 stack processor. Below are all parameters users can set.
+Instructions on how to set these parameters are also provided. Parameter default values are shown in the
+brackets. Remove the first four characters and the last three characters in a parameter line to set a
 parameter value.
 
 For the techinques and algorithms implemented in the software, refer to:
 
 1. ScanSAR or multi-mode InSAR processing
-C. Liang and E. J. Fielding, "Interferometry with ALOS-2 full-aperture ScanSAR data," 
+C. Liang and E. J. Fielding, "Interferometry with ALOS-2 full-aperture ScanSAR data,"
 IEEE Transactions on Geoscience and Remote Sensing, vol. 55, no. 5, pp. 2739-2750, May 2017.
 
-2. Ionospheric correction, burst-by-burst ScanSAR processing, and burst-mode spectral diversity (SD) or 
+2. Ionospheric correction, burst-by-burst ScanSAR processing, and burst-mode spectral diversity (SD) or
 multi-aperture InSAR (MAI) processing
-C. Liang and E. J. Fielding, "Measuring azimuth deformation with L-band ALOS-2 ScanSAR interferometry," 
+C. Liang and E. J. Fielding, "Measuring azimuth deformation with L-band ALOS-2 ScanSAR interferometry,"
 IEEE Transactions on Geoscience and Remote Sensing, vol. 55, no. 5, pp. 2725-2738, May 2017.
 
 3. Ionospheric correction
-C. Liang, Z. Liu, E. J. Fielding, and R. Bürgmann, "InSAR time series analysis of L-band wide-swath SAR 
-data acquired by ALOS-2," 
+C. Liang, Z. Liu, E. J. Fielding, and R. Bürgmann, "InSAR time series analysis of L-band wide-swath SAR
+data acquired by ALOS-2,"
 IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-4506, Aug. 2018.
 ======================================================================================================-->
 
@@ -57,7 +57,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
 
 
     <!--=========================================================================================
-    This is a list of frames, e.g., ['0680', '0690']. Here is how you can find frame number. Below 
+    This is a list of frames, e.g., ['0680', '0690']. Here is how you can find frame number. Below
     is a JAXA SLC product
     0000168233_001001_ALOS2183010690-171012.zip
     After you unpack the JAXA SLC product, you will find an image file like:
@@ -66,7 +66,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
     The number 0685 (indicated by ^) is the frame number. DON'T use the frame number in the zip
     file name, as it may be incorrect (like the above example).
 
-    If all dates have equal number of frames and the frames meet the following one-to-one 
+    If all dates have equal number of frames and the frames meet the following one-to-one
     correspondence, there is no need to set frames.
 
       Date1 Folder       Date2 Folder       Date3 Folder
@@ -86,7 +86,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
     #3 arcsec for geocoding
     mkdir dem_3_arcsec
     cd dem_3_arcsec
-    dem.py -a stitch -b 29 37 125 133 -k -s 3 -c -f -u http://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL3.003/2000.02.11
+    dem.py -a stitch -b 29 37 125 133 -k -s 3 -c -f -u https://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL3.003/2000.02.11
     fixImageXml.py -i demLat_*_*_Lon_*_*.dem.wgs84 -f
     rm *.hgt *.log demLat_*_*_Lon_*_*.dem demLat_*_*_Lon_*_*.dem.vrt demLat_*_*_Lon_*_*.dem.xml
     cd ../
@@ -94,7 +94,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
     #1 arcsec for creating differential interferogram
     mkdir dem_1_arcsec
     cd dem_1_arcsec
-    dem.py -a stitch -b 29 37 125 133 -k -s 1 -c -f -u http://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL1.003/2000.02.11
+    dem.py -a stitch -b 29 37 125 133 -k -s 1 -c -f -u https://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL1.003/2000.02.11
     fixImageXml.py -i demLat_*_*_Lon_*_*.dem.wgs84 -f
     rm *.hgt *.log demLat_*_*_Lon_*_*.dem demLat_*_*_Lon_*_*.dem.vrt demLat_*_*_Lon_*_*.dem.xml
     cd ../
@@ -137,7 +137,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
 
 
     <!--=========================================================================================
-    The following parameters are lists. Date format must be YYMMDD. Pair format must be 
+    The following parameters are lists. Date format must be YYMMDD. Pair format must be
     FIRST_DATE(YYMMDD)-SECOND_DATE(YYMMDD). An example input of pairs to be included or excluded:
     ['150225-150408', '150225-150520']
     ==========================================================================================-->
@@ -148,7 +148,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
 
 
     <!--=========================================================================================
-    Date in least squares estimation of ionospheric phase whose ionospheric phase is assumed to 
+    Date in least squares estimation of ionospheric phase whose ionospheric phase is assumed to
     be zero. Format must be YYMMDD. By default, first date of dates envolved in estimating
     ionosphere is used.
     ==========================================================================================-->
@@ -156,7 +156,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
 
 
     <!--=========================================================================================
-    The following parameters are the same as those above, but are for pairs for ionospheric 
+    The following parameters are the same as those above, but are for pairs for ionospheric
     estimation. Formats are also same.
     ==========================================================================================-->
     <!--<property name="number of subsequent dates for estimating ionosphere">4</property>-->
@@ -196,15 +196,15 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
 
     <!--=========================================================================================
     This is for determining the number of offsets to be estimated between reference and secondary SLCs.
-    for areas where no water body data available, turn this off, otherwise the program will use 
-    geometrical offset, which is not accuate enough. If it still does not work, set 
+    for areas where no water body data available, turn this off, otherwise the program will use
+    geometrical offset, which is not accuate enough. If it still does not work, set
     "number of range offsets for slc matching" and "number of azimuth offsets for slc matching"
     ==========================================================================================-->
     <!--<property name="use water body to dertermine number of matching offsets">True</property>-->
 
     <!--=========================================================================================
-    These are 2-D lists, with frame as the first dimension and swath as the second dimension. 
-    For example, if you want to process two frames and three swaths, you can specify one of 
+    These are 2-D lists, with frame as the first dimension and swath as the second dimension.
+    For example, if you want to process two frames and three swaths, you can specify one of
     these parameters as:
     [[20, 30, 20],[15, 20, 20]]
     ==========================================================================================-->
@@ -314,9 +314,9 @@ FBD (indicated by ^) is the acquisition mode code.
     ionosphere estimation. However, a larger number of looks may also lead to phase aliasing in
     the resulting inteferograms and therefore lead to phase unwrapping errors, which causes
     significant errors in ionosphere estimation.
-    If the area has strong troposhere or phase variations (normally in areas with large height 
+    If the area has strong troposhere or phase variations (normally in areas with large height
     differences such as edges of Tibetan Plateau), a smaller number of looks should be used to
-    avoid phase aliasing after taking looks. E.g. 1/2 of the default number of range/azimuth looks 
+    avoid phase aliasing after taking looks. E.g. 1/2 of the default number of range/azimuth looks
     ion that can be found in the annotation of parameter 'number of range looks 1'.
     ==========================================================================================-->
     <!--<property name="number of range looks ion">None</property>-->
@@ -324,7 +324,7 @@ FBD (indicated by ^) is the acquisition mode code.
 
     <!--=========================================================================================
     seperated islands or areas usually affect ionosphere estimation and it's better to mask them
-    out. check ion/ion_cal/lower_40rlks_224alks.int (here number of looks 40 and 224 depends on 
+    out. check ion/ion_cal/lower_40rlks_224alks.int (here number of looks 40 and 224 depends on
     your particular case) for areas to be masked out.
     The parameter is a 2-D list. Each element in the 2-D list is a four-element list: [firstLine,
     lastLine, firstColumn, lastColumn], with line/column numbers starting with 1. If one of the
@@ -345,7 +345,7 @@ FBD (indicated by ^) is the acquisition mode code.
 
     <!--=========================================================================================
     a 2-D list. e.g. if you are processing two ScanSAR frames, each with five swaths, and you want
-    to use a phase difference value 0.21 (rad) for swath 1 and 2 in frame 2, the parameter can be 
+    to use a phase difference value 0.21 (rad) for swath 1 and 2 in frame 2, the parameter can be
     specified as:
     [[None, None, None, None], [0.21, None, None, None]]
     This parameter has highest priority in determing phase difference between swaths.
diff --git a/examples/input_files/alos2/alos2App.xml b/examples/input_files/alos2/alos2App.xml
index 36a3337..8cc0dce 100644
--- a/examples/input_files/alos2/alos2App.xml
+++ b/examples/input_files/alos2/alos2App.xml
@@ -3,13 +3,13 @@
   <component name="alos2insar">
 
 
-    <!--Note that, in ScanSAR-stripmap interferometry, ScanSAR must be reference! see section 
-    2. SET PARAMETERS in 'alos2_tutorial.txt' to determine if you are doing ScanSAR-stripmap 
+    <!--Note that, in ScanSAR-stripmap interferometry, ScanSAR must be reference! see section
+    2. SET PARAMETERS in 'alos2_tutorial.txt' to determine if you are doing ScanSAR-stripmap
     interferometry-->
     <property name="reference directory">../../../z_common_data/insarzd_test_dataset/gorkha/d048/150405</property>
     <property name="secondary directory">../../../z_common_data/insarzd_test_dataset/gorkha/d048/150503</property>
-    <!--Normally no need to set frame numbers, but if reference and secondary frames do not meet the following 
-    one-to-one correspondence, you need to set frame numbers here. See instructions below on how to find 
+    <!--Normally no need to set frame numbers, but if reference and secondary frames do not meet the following
+    one-to-one correspondence, you need to set frame numbers here. See instructions below on how to find
     and set frame numbers.
 
     Reference Data Folder               Secondary Data Folder
@@ -21,9 +21,9 @@
     <property name="reference frames">[3055]</property>
     <property name="secondary frames">[3055]</property>
 
-    <!--optional, see instructions below on how to get DEM and water body. If you only process one 
-    interferogram, you can choose not to set these and the program will download them for you. If you 
-    process a stack of interferograms, it's better to set these so that the program won't download them 
+    <!--optional, see instructions below on how to get DEM and water body. If you only process one
+    interferogram, you can choose not to set these and the program will download them for you. If you
+    process a stack of interferograms, it's better to set these so that the program won't download them
     multiple times. -->
     <property name="dem for coregistration">../../../z_common_data/insarzd_test_dataset/gorkha/dem/demLat_N22_N33_Lon_E078_E092.dem.wgs84</property>
     <property name="dem for geocoding">../../../z_common_data/insarzd_test_dataset/gorkha/dem/3/demLat_N22_N33_Lon_E078_E092.dem.wgs84</property>
@@ -32,7 +32,7 @@
 
     <!--=========================================================================================
     See also comments of parameters "number of range looks ion" and "number of azimuth looks ion"
-    below to set a smaller number of looks to avoid phase aliasing in some areas (such as edges of 
+    below to set a smaller number of looks to avoid phase aliasing in some areas (such as edges of
     Tibetan Plateau, where there might be strong tropospheric variations due to large height
     differences).
     ==========================================================================================-->
@@ -42,25 +42,25 @@
 <!--=====================================================================================================
                                     instructions for alos2App.py/alos2burstApp.py
 
-This is the input file of alos2App.py/alos2burstApp.py. Below are all parameters users can set. 
-Instructions on how to set these parameters are also provided. Parameter default values are shown in the 
-brackets. Remove the first four characters and the last three characters in a parameter line to set a 
+This is the input file of alos2App.py/alos2burstApp.py. Below are all parameters users can set.
+Instructions on how to set these parameters are also provided. Parameter default values are shown in the
+brackets. Remove the first four characters and the last three characters in a parameter line to set a
 parameter value.
 
 For the techinques and algorithms implemented in the software, refer to:
 
 1. ScanSAR or multi-mode InSAR processing
-C. Liang and E. J. Fielding, "Interferometry with ALOS-2 full-aperture ScanSAR data," 
+C. Liang and E. J. Fielding, "Interferometry with ALOS-2 full-aperture ScanSAR data,"
 IEEE Transactions on Geoscience and Remote Sensing, vol. 55, no. 5, pp. 2739-2750, May 2017.
 
-2. Ionospheric correction, burst-by-burst ScanSAR processing, and burst-mode spectral diversity (SD) or 
+2. Ionospheric correction, burst-by-burst ScanSAR processing, and burst-mode spectral diversity (SD) or
 multi-aperture InSAR (MAI) processing
-C. Liang and E. J. Fielding, "Measuring azimuth deformation with L-band ALOS-2 ScanSAR interferometry," 
+C. Liang and E. J. Fielding, "Measuring azimuth deformation with L-band ALOS-2 ScanSAR interferometry,"
 IEEE Transactions on Geoscience and Remote Sensing, vol. 55, no. 5, pp. 2725-2738, May 2017.
 
 3. Ionospheric correction
-C. Liang, Z. Liu, E. J. Fielding, and R. Bürgmann, "InSAR time series analysis of L-band wide-swath SAR 
-data acquired by ALOS-2," 
+C. Liang, Z. Liu, E. J. Fielding, and R. Bürgmann, "InSAR time series analysis of L-band wide-swath SAR
+data acquired by ALOS-2,"
 IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-4506, Aug. 2018.
 ======================================================================================================-->
 
@@ -69,7 +69,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
     <!--<property name="secondary directory">None</property>-->
 
     <!--=========================================================================================
-    This is a list of frames, e.g., [0680, 0690]. Here is how you can find frame number. Below 
+    This is a list of frames, e.g., [0680, 0690]. Here is how you can find frame number. Below
     is a JAXA SLC product
     0000168233_001001_ALOS2183010690-171012.zip
     After you unpack the JAXA SLC product, you will find an image file like:
@@ -98,7 +98,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
     #3 arcsec for geocoding
     mkdir dem_3_arcsec
     cd dem_3_arcsec
-    dem.py -a stitch -b 29 37 125 133 -k -s 3 -c -f -u http://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL3.003/2000.02.11
+    dem.py -a stitch -b 29 37 125 133 -k -s 3 -c -f -u https://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL3.003/2000.02.11
     fixImageXml.py -i demLat_*_*_Lon_*_*.dem.wgs84 -f
     rm *.hgt *.log demLat_*_*_Lon_*_*.dem demLat_*_*_Lon_*_*.dem.vrt demLat_*_*_Lon_*_*.dem.xml
     cd ../
@@ -106,7 +106,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
     #1 arcsec for creating differential interferogram
     mkdir dem_1_arcsec
     cd dem_1_arcsec
-    dem.py -a stitch -b 29 37 125 133 -k -s 1 -c -f -u http://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL1.003/2000.02.11
+    dem.py -a stitch -b 29 37 125 133 -k -s 1 -c -f -u https://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL1.003/2000.02.11
     fixImageXml.py -i demLat_*_*_Lon_*_*.dem.wgs84 -f
     rm *.hgt *.log demLat_*_*_Lon_*_*.dem demLat_*_*_Lon_*_*.dem.vrt demLat_*_*_Lon_*_*.dem.xml
     cd ../
@@ -125,12 +125,12 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
 
     <!--=========================================================================================
     this water body is used to create water body in radar coordinate used in processing.
-    radar-coordinate water body is created three times in runRdr2Geo.py, runLook.py and 
+    radar-coordinate water body is created three times in runRdr2Geo.py, runLook.py and
     runIonUwrap.py, respectively. radar-coordinate water body is used in:
-    (1) determining the number of offsets in slc offset estimation, and radar/dem offset 
+    (1) determining the number of offsets in slc offset estimation, and radar/dem offset
         estimation
     (2) masking filtered interferogram or unwrapped interferogram
-    (3) determining the number of offsets in slc residual offset estimation after geometric 
+    (3) determining the number of offsets in slc residual offset estimation after geometric
         offset computation in coregistering slcs in dense offset.
     (4) masking dense offset field
     (5) mask coherence in ionosphere fitting and filtering
@@ -147,14 +147,14 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
 
 
     <!--=========================================================================================
-    if ScanSAR burst synchronization is lower than this threshold, an MBF filter is applied to 
+    if ScanSAR burst synchronization is lower than this threshold, an MBF filter is applied to
     the reference/secondary images to remove non-overlap azimuth burst spectrum to improve coherence.
     ==========================================================================================-->
     <!--<property name="burst synchronization threshold">75.0</property>-->
 
 
     <!--=========================================================================================
-    crop slcs to the reference/secondary overlap area. Cropping is always done for ScanSAR-stripmap 
+    crop slcs to the reference/secondary overlap area. Cropping is always done for ScanSAR-stripmap
     interferometry
     ==========================================================================================-->
     <!--<property name="crop slc">False</property>-->
@@ -162,15 +162,15 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
 
     <!--=========================================================================================
     This is for determining the number of offsets to be estimated between reference and secondary SLCs.
-    for areas where no water body data available, turn this off, otherwise the program will use 
-    geometrical offset, which is not accuate enough. If it still does not work, set 
+    for areas where no water body data available, turn this off, otherwise the program will use
+    geometrical offset, which is not accuate enough. If it still does not work, set
     "number of range offsets for slc matching" and "number of azimuth offsets for slc matching"
     ==========================================================================================-->
     <!--<property name="use water body to dertermine number of matching offsets">True</property>-->
 
     <!--=========================================================================================
-    These are 2-D lists, with frame as the first dimension and swath as the second dimension. 
-    For example, if you want to process two frames and three swaths, you can specify one of 
+    These are 2-D lists, with frame as the first dimension and swath as the second dimension.
+    For example, if you want to process two frames and three swaths, you can specify one of
     these parameters as:
     [[20, 30, 20],[15, 20, 20]]
     ==========================================================================================-->
@@ -287,9 +287,9 @@ FBD (indicated by ^) is the acquisition mode code.
     ionosphere estimation. However, a larger number of looks may also lead to phase aliasing in
     the resulting inteferograms and therefore lead to phase unwrapping errors, which causes
     significant errors in ionosphere estimation.
-    If the area has strong troposhere or phase variations (normally in areas with large height 
+    If the area has strong troposhere or phase variations (normally in areas with large height
     differences such as edges of Tibetan Plateau), a smaller number of looks should be used to
-    avoid phase aliasing after taking looks. E.g. 1/2 of the default number of range/azimuth looks 
+    avoid phase aliasing after taking looks. E.g. 1/2 of the default number of range/azimuth looks
     ion that can be found in the annotation of parameter 'number of range looks 1'.
     ==========================================================================================-->
     <!--<property name="number of range looks ion">None</property>-->
@@ -297,7 +297,7 @@ FBD (indicated by ^) is the acquisition mode code.
 
     <!--=========================================================================================
     seperated islands or areas usually affect ionosphere estimation and it's better to mask them
-    out. check ion/ion_cal/lower_40rlks_224alks.int (here number of looks 40 and 224 depends on 
+    out. check ion/ion_cal/lower_40rlks_224alks.int (here number of looks 40 and 224 depends on
     your particular case) for areas to be masked out.
     The parameter is a 2-D list. Each element in the 2-D list is a four-element list: [firstLine,
     lastLine, firstColumn, lastColumn], with line/column numbers starting with 1. If one of the
@@ -318,7 +318,7 @@ FBD (indicated by ^) is the acquisition mode code.
 
     <!--=========================================================================================
     a 2-D list. e.g. if you are processing two ScanSAR frames, each with five swaths, and you want
-    to use a phase difference value 0.21 (rad) for swath 1 and 2 in frame 2, the parameter can be 
+    to use a phase difference value 0.21 (rad) for swath 1 and 2 in frame 2, the parameter can be
     specified as:
     [[None, None, None, None], [0.21, None, None, None]]
     This parameter has highest priority in determing phase difference between swaths.
diff --git a/examples/input_files/alos2/alos2burstApp.xml b/examples/input_files/alos2/alos2burstApp.xml
index dde304c..416f65a 100644
--- a/examples/input_files/alos2/alos2burstApp.xml
+++ b/examples/input_files/alos2/alos2burstApp.xml
@@ -3,13 +3,13 @@
   <component name="alos2burstinsar">
 
 
-    <!--Note that, in ScanSAR-stripmap interferometry, ScanSAR must be reference! see section 
-    2. SET PARAMETERS in 'alos2_tutorial.txt' to determine if you are doing ScanSAR-stripmap 
+    <!--Note that, in ScanSAR-stripmap interferometry, ScanSAR must be reference! see section
+    2. SET PARAMETERS in 'alos2_tutorial.txt' to determine if you are doing ScanSAR-stripmap
     interferometry-->
     <property name="reference directory">../../../z_common_data/insarzd_test_dataset/gorkha/d048/150405</property>
     <property name="secondary directory">../../../z_common_data/insarzd_test_dataset/gorkha/d048/150503</property>
-    <!--Normally no need to set frame numbers, but if reference and secondary frames do not meet the following 
-    one-to-one correspondence, you need to set frame numbers here. See instructions below on how to find 
+    <!--Normally no need to set frame numbers, but if reference and secondary frames do not meet the following
+    one-to-one correspondence, you need to set frame numbers here. See instructions below on how to find
     and set frame numbers.
 
     Reference Data Folder               Secondary Data Folder
@@ -21,9 +21,9 @@
     <property name="reference frames">[3055]</property>
     <property name="secondary frames">[3055]</property>
 
-    <!--optional, see instructions below on how to get DEM and water body. If you only process one 
-    interferogram, you can choose not to set these and the program will download them for you. If you 
-    process a stack of interferograms, it's better to set these so that the program won't download them 
+    <!--optional, see instructions below on how to get DEM and water body. If you only process one
+    interferogram, you can choose not to set these and the program will download them for you. If you
+    process a stack of interferograms, it's better to set these so that the program won't download them
     multiple times. -->
     <property name="dem for coregistration">../../../z_common_data/insarzd_test_dataset/gorkha/dem/demLat_N22_N33_Lon_E078_E092.dem.wgs84</property>
     <property name="dem for geocoding">../../../z_common_data/insarzd_test_dataset/gorkha/dem/3/demLat_N22_N33_Lon_E078_E092.dem.wgs84</property>
@@ -37,25 +37,25 @@
 <!--=====================================================================================================
                                     instructions for alos2App.py/alos2burstApp.py
 
-This is the input file of alos2App.py/alos2burstApp.py. Below are all parameters users can set. 
-Instructions on how to set these parameters are also provided. Parameter default values are shown in the 
-brackets. Remove the first four characters and the last three characters in a parameter line to set a 
+This is the input file of alos2App.py/alos2burstApp.py. Below are all parameters users can set.
+Instructions on how to set these parameters are also provided. Parameter default values are shown in the
+brackets. Remove the first four characters and the last three characters in a parameter line to set a
 parameter value.
 
 For the techinques and algorithms implemented in the software, refer to:
 
 1. ScanSAR or multi-mode InSAR processing
-C. Liang and E. J. Fielding, "Interferometry with ALOS-2 full-aperture ScanSAR data," 
+C. Liang and E. J. Fielding, "Interferometry with ALOS-2 full-aperture ScanSAR data,"
 IEEE Transactions on Geoscience and Remote Sensing, vol. 55, no. 5, pp. 2739-2750, May 2017.
 
-2. Ionospheric correction, burst-by-burst ScanSAR processing, and burst-mode spectral diversity (SD) or 
+2. Ionospheric correction, burst-by-burst ScanSAR processing, and burst-mode spectral diversity (SD) or
 multi-aperture InSAR (MAI) processing
-C. Liang and E. J. Fielding, "Measuring azimuth deformation with L-band ALOS-2 ScanSAR interferometry," 
+C. Liang and E. J. Fielding, "Measuring azimuth deformation with L-band ALOS-2 ScanSAR interferometry,"
 IEEE Transactions on Geoscience and Remote Sensing, vol. 55, no. 5, pp. 2725-2738, May 2017.
 
 3. Ionospheric correction
-C. Liang, Z. Liu, E. J. Fielding, and R. Bürgmann, "InSAR time series analysis of L-band wide-swath SAR 
-data acquired by ALOS-2," 
+C. Liang, Z. Liu, E. J. Fielding, and R. Bürgmann, "InSAR time series analysis of L-band wide-swath SAR
+data acquired by ALOS-2,"
 IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-4506, Aug. 2018.
 ======================================================================================================-->
 
@@ -65,7 +65,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
     <!--<property name="secondary directory">None</property>-->
 
     <!--=========================================================================================
-    This is a list of frames, e.g., [0680, 0690]. Here is how you can find frame number. Below 
+    This is a list of frames, e.g., [0680, 0690]. Here is how you can find frame number. Below
     is a JAXA SLC product
     0000168233_001001_ALOS2183010690-171012.zip
     After you unpack the JAXA SLC product, you will find an image file like:
@@ -93,7 +93,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
     #3 arcsec for geocoding
     mkdir dem_3_arcsec
     cd dem_3_arcsec
-    dem.py -a stitch -b 29 37 125 133 -k -s 3 -c -f -u http://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL3.003/2000.02.11
+    dem.py -a stitch -b 29 37 125 133 -k -s 3 -c -f -u https://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL3.003/2000.02.11
     fixImageXml.py -i demLat_*_*_Lon_*_*.dem.wgs84 -f
     rm *.hgt *.log demLat_*_*_Lon_*_*.dem demLat_*_*_Lon_*_*.dem.vrt demLat_*_*_Lon_*_*.dem.xml
     cd ../
@@ -101,7 +101,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
     #1 arcsec for creating differential interferogram
     mkdir dem_1_arcsec
     cd dem_1_arcsec
-    dem.py -a stitch -b 29 37 125 133 -k -s 1 -c -f -u http://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL1.003/2000.02.11
+    dem.py -a stitch -b 29 37 125 133 -k -s 1 -c -f -u https://e4ftl01.cr.usgs.gov/MEASURES/SRTMGL1.003/2000.02.11
     fixImageXml.py -i demLat_*_*_Lon_*_*.dem.wgs84 -f
     rm *.hgt *.log demLat_*_*_Lon_*_*.dem demLat_*_*_Lon_*_*.dem.vrt demLat_*_*_Lon_*_*.dem.xml
     cd ../
@@ -120,9 +120,9 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
 
     <!--=========================================================================================
     this water body is used to create water body in radar coordinate used in processing.
-    radar-coordinate water body is created four times in runRdr2Geo.py, runLook.py, runIonUwrap.py 
+    radar-coordinate water body is created four times in runRdr2Geo.py, runLook.py, runIonUwrap.py
     and runLookSd.py, respectively. radar-coordinate water body is used in:
-    (1) determining the number of offsets in slc offset estimation, and radar/dem offset 
+    (1) determining the number of offsets in slc offset estimation, and radar/dem offset
         estimation
     (2) masking filtered interferogram or unwrapped interferogram
     (3) masking filtered interferogram or unwrapped interferogram in sd processing
@@ -144,15 +144,15 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
 
     <!--=========================================================================================
     This is for determining the number of offsets to be estimated between reference and secondary SLCs.
-    for areas where no water body data available, turn this off, otherwise the program will use 
-    geometrical offset, which is not accuate enough. If it still does not work, set 
+    for areas where no water body data available, turn this off, otherwise the program will use
+    geometrical offset, which is not accuate enough. If it still does not work, set
     "number of range offsets for slc matching" and "number of azimuth offsets for slc matching"
     ==========================================================================================-->
     <!--<property name="use water body to dertermine number of matching offsets">True</property>-->
 
     <!--=========================================================================================
-    These are 2-D lists, with frame as the first dimension and swath as the second dimension. 
-    For example, if you want to process two frames and three swaths, you can specify one of 
+    These are 2-D lists, with frame as the first dimension and swath as the second dimension.
+    For example, if you want to process two frames and three swaths, you can specify one of
     these parameters as:
     [[20, 30, 20],[15, 20, 20]]
     ==========================================================================================-->
@@ -162,7 +162,7 @@ IEEE Transactions on Geoscience and Remote Sensing, vol. 56, no. 8, pp. 4492-450
 
 <!--============================================================================================================================================
 Instructions on number of looks used by the software
-In alos2burstApp.py, number of range/azimuth looks 1 is always 1. Usually there is no need to set number of range/azimuth looks sim 
+In alos2burstApp.py, number of range/azimuth looks 1 is always 1. Usually there is no need to set number of range/azimuth looks sim
 (automatically set).
 
 total number of looks of InSAR processing is:       number of range/azimuth looks 1 * number of range/azimuth looks 2
@@ -174,7 +174,7 @@ Below is the default number of looks used by the software. REMEMBER, NORMALLY YO
 AND number of range/azimuth looks sd!!!
 
 ==================================================================================================================
- Operation Mode | Mode (AUIG2) | Mode (in file name) | look1 (r*a) | look2 (r*a) | look_ion (r*a) | look_sd (r*a)  
+ Operation Mode | Mode (AUIG2) | Mode (in file name) | look1 (r*a) | look2 (r*a) | look_ion (r*a) | look_sd (r*a)
 ==================================================================================================================
    ScanSAR      |     WD1      | WBS, WBD, WWS, WWD  |     1*1     |     7*2     |     42*12      |      14*4
 ==================================================================================================================
@@ -271,7 +271,7 @@ FBD (indicated by ^) is the acquisition mode code.
 
     <!--=========================================================================================
     seperated islands or areas usually affect ionosphere estimation and it's better to mask them
-    out. check ion/ion_cal/lower_40rlks_224alks.int (here number of looks 40 and 224 depends on 
+    out. check ion/ion_cal/lower_40rlks_224alks.int (here number of looks 40 and 224 depends on
     your particular case) for areas to be masked out.
     The parameter is a 2-D list. Each element in the 2-D list is a four-element list: [firstLine,
     lastLine, firstColumn, lastColumn], with line/column numbers starting with 1. If one of the
@@ -292,7 +292,7 @@ FBD (indicated by ^) is the acquisition mode code.
 
     <!--=========================================================================================
     a 2-D list. e.g. if you are processing two ScanSAR frames, each with five swaths, and you want
-    to use a phase difference value 0.21 (rad) for swath 1 and 2 in frame 2, the parameter can be 
+    to use a phase difference value 0.21 (rad) for swath 1 and 2 in frame 2, the parameter can be
     specified as:
     [[None, None, None, None], [0.21, None, None, None]]
     This parameter has highest priority in determing phase difference between swaths.