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InSAR Scientific Computing Environment version 2
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Two errors while running run_01_unpack_topo_reference #762

Closed ranneylxr closed 1 year ago

ranneylxr commented 1 year ago

I am stacking Sentinel-1 images for StaMPS processing. And I meet two errors: sh run_01_unpack_topo_reference The output message is: Completed Parsing the Configuration file Functions to be executed: ['Function-1', 'Function-2'] Running: Sentinel1_TOPS ['--dirname', '/scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.zip /scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.zip', '--swaths', '2', '--orbitdir', '/work2/09401/xlv/stampede2/insarlab/S1orbits', '--outdir', '/scratch/09401/xlv/EifelSenDT139_SP/reference', '--auxdir', '/work2/09401/xlv/stampede2/insarlab/S1aux', '--bbox', '49.55 51.35 6.50 8.60', '--pol', 'vv'] This is the Open Source version of ISCE. Some of the workflows depend on a separate licensed package. To obtain the licensed package, please make a request for ISCE through the website: https://download.jpl.nasa.gov/ops/request/index.cfm. Alternatively, if you are a member, or can become a member of WinSAR you may be able to obtain access to a version of the licensed sofware at https://winsar.unavco.org/software/isce Input XML files: ['/vsizip//scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.zip/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.SAFE/annotation/s1a-iw2-slc-vv-20220623t054222-20220623t054247-043786-053a33-005.xml', '/vsizip//scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.zip/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.SAFE/annotation/s1a-iw2-slc-vv-20220623t054246-20220623t054312-043786-053a33-005.xml'] Input TIFF files: ['/vsizip//scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.zip/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.SAFE/measurement/s1a-iw2-slc-vv-20220623t054222-20220623t054247-043786-053a33-005.tiff', '/vsizip//scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.zip/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.SAFE/measurement/s1a-iw2-slc-vv-20220623t054246-20220623t054312-043786-053a33-005.tiff'] Manifest files: ['/vsizip//scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.zip/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.SAFE/manifest.safe', '/vsizip//scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.zip/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.SAFE/manifest.safe'] Input XML files: ['/vsizip//scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.zip/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.SAFE/annotation/s1a-iw2-slc-vv-20220623t054222-20220623t054247-043786-053a33-005.xml'] Input TIFF files: ['/vsizip//scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.zip/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.SAFE/measurement/s1a-iw2-slc-vv-20220623t054222-20220623t054247-043786-053a33-005.tiff'] MANS: /scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054221_20220623T054248_043786_053A33_F595.zip S1A_IW_SLC__1SDV_20220623T054221_20220623T054248_043786_053A33_F595.SAFE/manifest.safe Setting IPF version to : 003.52 Extracting orbit from Orbit File: /work2/09401/xlv/stampede2/insarlab/S1orbits/S1A_OPER_AUX_POEORB_OPOD_20220713T081826_V20220622T225942_20220624T005942.EOF Number of Bursts before cropping: 9 Number of Bursts after cropping: 5 Input XML files: ['/vsizip//scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.zip/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.SAFE/annotation/s1a-iw2-slc-vv-20220623t054246-20220623t054312-043786-053a33-005.xml'] Input TIFF files: ['/vsizip//scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.zip/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.SAFE/measurement/s1a-iw2-slc-vv-20220623t054246-20220623t054312-043786-053a33-005.tiff'] MANS: /scratch/09401/xlv/EifelSenDT139_SP/SLC/S1A_IW_SLC1SDV_20220623T054245_20220623T054312_043786_053A33_8335.zip S1A_IW_SLC__1SDV_20220623T054245_20220623T054312_043786_053A33_8335.SAFE/manifest.safe Setting IPF version to : 003.52 Extracting orbit from Orbit File: /work2/09401/xlv/stampede2/insarlab/S1orbits/S1A_OPER_AUX_POEORB_OPOD_20220713T081826_V20220622T225942_20220624T005942.EOF Number of Bursts before cropping: 9 Number of Bursts after cropping: 8 Stitching 2 slices together module 'numpy' has no attribute 'int'. np.int was a deprecated alias for the builtin int. To avoid this error in existing code, use int by itself. Doing this will not modify any behavior and is safe. When replacing np.int, you may wish to use e.g. np.int64 or np.int32 to specify the precision. If you wish to review your current use, check the release note link for additional information. The aliases was originally deprecated in NumPy 1.20; for more details and guidance see the original release note at: https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations Running: topo ['--reference', '/scratch/09401/xlv/EifelSenDT139_SP/reference', '--dem', '/scratch/09401/xlv/EifelSenDT139_SP/DEM/demLat_N46_N54_Lon_E004_E012.dem.wgs84', '--geom_referenceDir', '/scratch/09401/xlv/EifelSenDT139_SP/geom_reference', '--numProcess', '8'] running in parallel with 8 processes Traceback (most recent call last): File "/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/SentinelWrapper.py", line 251, in main(args.start,args.end) File "/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/SentinelWrapper.py", line 242, in main cfgParser.runCmd() File "/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/SentinelWrapper.py", line 54, in runCmd func_modules.main(self.funcParams[section]) File "/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/topo.py", line 112, in main bbox = [np.min(boxes[:,0]), np.max(boxes[:,1]), np.min(boxes[:,2]), np.max(boxes[:,3])] IndexError: too many indices for array: array is 1-dimensional, but 2 were indexed

But I can't find where the np.int appears in the isce scripts. Please check the grep results:

/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/prep4timeseries.py:20:3 : np.int16,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/prep4timeseries.py:22:5 : np.int32,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/MaskAndFilter.py:21:3 : np.int16,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/MaskAndFilter.py:23:5 : np.int32,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/computeIon.py:55:    #     n = np.int32(len(inps.masked_areas)/4)
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/rubberSheeting.py:23:3 : np.int16,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/rubberSheeting.py:25:5 : np.int32,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/Stack.py:1279:                    configObj.rvalid = np.int32(np.around(ionParamUsrObj.ION_numberRangeLooks/8.0))
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/Stack.py:1390:                    configObj.nrlks = np.int32(np.around(ionParamUsrObj.ION_numberRangeLooks / ionParamUsrObj.ION_numberRangeLooks0))
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/Stack.py:1391:                    configObj.nalks = np.int32(np.around(ionParamUsrObj.ION_numberAzimuthLooks / ionParamUsrObj.ION_numberAzimuthLooks0))
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/Stack.py:1397:                #configObj.nrlks = np.int32(np.around(ionParamUsrObj.ION_numberRangeLooks / ionParamUsrObj.ION_numberRangeLooks0))
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/Stack.py:1398:                #configObj.nalks = np.int32(np.around(ionParamUsrObj.ION_numberAzimuthLooks / ionParamUsrObj.ION_numberAzimuthLooks0))
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/Stack.py:1410:                    configObj.nrlks = np.int32(np.around(ionParamUsrObj.ION_numberRangeLooks / ionParamUsrObj.ION_numberRangeLooks0))
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/Stack.py:1411:                    configObj.nalks = np.int32(np.around(ionParamUsrObj.ION_numberAzimuthLooks / ionParamUsrObj.ION_numberAzimuthLooks0))
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/Stack.py:1420:                    #configObj.nrlks = np.int32(np.around(ionParamUsrObj.ION_numberRangeLooks / ionParamUsrObj.ION_numberRangeLooks0))
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/topsStack/Stack.py:1421:                    #configObj.nalks = np.int32(np.around(ionParamUsrObj.ION_numberAzimuthLooks / ionParamUsrObj.ION_numberAzimuthLooks0))
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/stripmapStack/MaskAndFilter.py:28:    3 : np.int16,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/stripmapStack/MaskAndFilter.py:30:    5 : np.int32,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/stripmapStack/resampleOffsets.py:19:3 : np.int16,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/stripmapStack/resampleOffsets.py:21:5 : np.int32,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/stripmapStack/prepStripmap4timeseries.py:21:3 : np.int16,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/stripmapStack/prepStripmap4timeseries.py:23:5 : np.int32,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/stripmapStack/rubberSheeting.py:20:3 : np.int16,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/stripmapStack/rubberSheeting.py:22:5 : np.int32,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/stripmapStack/reader.py:19:3 : np.int16,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/stripmapStack/reader.py:21:5 : np.int32,
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/alosStack/ion_filt.py:90:    wbd = np.fromfile('wbd'+ml2+'.wbd', dtype=np.int8).reshape(length, width)
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/alosStack/ion_filt.py:189:    wbd = np.fromfile('wbd'+ml2+'.wbd', dtype=np.int8).reshape(length, width)
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/alosStack/ion_filt.py:196:    #     wbd = np.fromfile(waterBodyFile, dtype=np.in8).reshape(length, width)
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/alosStack/ion_filt.py:255:    win2 = np.zeros(cor2.size, dtype=np.int32)
/work2/09401/xlv/stampede2/software/rsmas_insar/tools/miniconda3/share/isce2/TOPS/Sentinel1.py:1143:        theta = np.interp(tau, tau_sub, theta_sub)

Could the np.int error induce the IndexError? If anybody has any ideas, please give me some suggestions. Thank you.

ranneylxr commented 1 year ago

Now it is runing fine. There is a 'np.int' in python/site-package/isce/components/isceobj/Sensor/TOPS/Sentinel1.py