Fixed saving avg_gmf

debian/changelog

@@ -1,4 +1,5 @@
   [Michele Simionato]
+  * Changed the `avg_gmf` exporter to export only nonzero values
   * Fixed bug in classical_risk from hazard_curves.csv manifesting as a KeyError in
     U32([sid2idx[sid] for sid in df.sid])
 

openquake/calculators/event_based.py

@@ -985,7 +985,7 @@ def save_avg_gmf(self):
         Compute and save avg_gmf, unless there are too many GMFs
         """
         oq = self.oqparam
-        N = len(self.sitecol.complete)
+        N = len(self.sitecol)
         C = len(self.oqparam.all_imts())
         size = self.datastore.getsize('gmf_data')
         maxsize = self.oqparam.gmf_max_gb * 1024 ** 3
@@ -1014,9 +1014,10 @@ def save_avg_gmf(self):
         avg_gmf = numpy.zeros((2, N, C), F32)
         min_iml = numpy.ones(C) * 1E-10
         min_iml[:M] = self.oqparam.min_iml
-        for sid, avgstd in compute_avg_gmf(
-                gmf_df, self.weights, min_iml).items():
-            avg_gmf[:, sid] = avgstd
+        avgstd = compute_avg_gmf(
+            gmf_df, self.weights, min_iml)
+        for i, sid in enumerate(self.sitecol.sids):
+            avg_gmf[:, i] = avgstd.get(sid, 0)
         self.datastore['avg_gmf'] = avg_gmf
         # make avg_gmf plots only if running via the webui
         if oq.impact:

openquake/calculators/export/hazard.py

@@ -548,23 +548,10 @@ def export_relevant_gmfs(ekey, dstore):
 @export.add(('avg_gmf', 'csv'))
 def export_avg_gmf_csv(ekey, dstore):
     oq = dstore['oqparam']
-    if dstore.parent:
-        sitecol = dstore.parent['sitecol']
-    else:
-        sitecol = dstore['sitecol']
-    if 'custom_site_id' in sitecol.array.dtype.names:
-        dic = dict(custom_site_id=decode(sitecol.custom_site_id))
-    else:
-        dic = dict(site_id=sitecol.sids)
-    dic['lon'] = sitecol.lons
-    dic['lat'] = sitecol.lats
-    data = dstore['avg_gmf'][:]  # shape (2, N, C)
-    imts = list(oq.imtls)
+    dic = {}
     for m, imt in enumerate(oq.all_imts()):
-        if m < len(imts):
-            imt = imts[m]
-        dic['gmv_' + imt] = data[0, :, m]
-        dic['gsd_' + imt] = data[1, :, m]
+        dic.update(extract(dstore, f'avg_gmf?imt={imt}'))
+    del dic['extra']
     fname = dstore.build_fname('avg_gmf', '', 'csv')
     writers.CsvWriter(fmt=writers.FIVEDIGITS).save(
         pandas.DataFrame(dic), fname, comment=dstore.metadata)

openquake/calculators/extract.py

@@ -76,7 +76,7 @@ def get_info(dstore):
     oq = dstore['oqparam']
     stats = {stat: s for s, stat in enumerate(oq.hazard_stats())}
     loss_types = {lt: li for li, lt in enumerate(oq.loss_dt().names)}
-    imt = {imt: i for i, imt in enumerate(oq.imtls)}
+    imt = {imt: i for i, imt in enumerate(oq.all_imts())}
     num_rlzs = len(base.get_weights(oq, dstore))
     return dict(stats=stats, num_rlzs=num_rlzs, loss_types=loss_types,
                 imtls=oq.imtls, investigation_time=oq.investigation_time,
@@ -1297,23 +1297,23 @@ def extract_relevant_gmfs(dstore, what):
 def extract_avg_gmf(dstore, what):
     qdict = parse(what)
     info = get_info(dstore)
+    sitecol = dstore['sitecol']
     [imt] = qdict['imt']
     imti = info['imt'][imt]
-    try:
-        complete = dstore['complete']
-    except KeyError:
-        complete = dstore['sitecol'].complete
     avg_gmf = dstore['avg_gmf'][0, :, imti]
     if 'station_data' in dstore:
         # discard the stations from the avg_gmf plot
         stations = dstore['station_data/site_id'][:]
-        ok = (avg_gmf > 0) & ~numpy.isin(complete.sids, stations)
+        ok = (avg_gmf > 0) & ~numpy.isin(sitecol.sids, stations)
     else:
         ok = avg_gmf > 0
-    yield imt, avg_gmf[complete.sids[ok]]
-    yield 'sids', complete.sids[ok]
-    yield 'lons', complete.lons[ok]
-    yield 'lats', complete.lats[ok]
+    if 'custom_site_id' in sitecol.array.dtype.names:
+        yield 'custom_site_id', decode(sitecol.custom_site_id[ok])
+    else:
+        yield 'site_id', sitecol.sids[ok]
+    yield 'lon', sitecol.lons[ok]
+    yield 'lat', sitecol.lats[ok]
+    yield imt, avg_gmf[ok]
 
 
 @extract.add('num_events')

openquake/calculators/postproc/plots.py

@@ -342,7 +342,7 @@ def plot_avg_gmf(ex, imt):
     avg_gmf = ex.get('avg_gmf?imt=%s' % imt)
     gmf = avg_gmf[imt]
     markersize = 5
-    coll = ax.scatter(avg_gmf['lons'], avg_gmf['lats'], c=gmf, cmap='jet',
+    coll = ax.scatter(avg_gmf['lon'], avg_gmf['lat'], c=gmf, cmap='jet',
                       s=markersize)
     plt.colorbar(coll)
 

openquake/qa_tests_data/event_based/case_19/expected/avg_gmf.csv

@@ -1,6 +1,6 @@
-#,,,,"generated_by='OpenQuake engine 3.25.0-gita29978772c', start_date='2025-11-22T03:06:41', checksum=2978914818"
-custom_site_id,lon,lat,gmv_SA(0.3),gsd_SA(0.3)
-c28ry760,-1.23121E+02,4.91928E+01,2.04106E-02,1.18390E+00
-c2b2q7dh,-1.23121E+02,4.92827E+01,2.04555E-02,1.15622E+00
-c28xc7q0,-1.22983E+02,4.91928E+01,2.08329E-02,1.23205E+00
-c2b837ws,-1.22983E+02,4.92827E+01,2.04087E-02,1.17140E+00
+#,,,"generated_by='OpenQuake engine 3.27.0-gitb6f3282621', start_date='2026-07-21T07:21:24', checksum=3397435242"
+custom_site_id,lon,lat,SA(0.3)
+c28ry760,-1.23121E+02,4.91928E+01,2.04106E-02
+c2b2q7dh,-1.23121E+02,4.92827E+01,2.04555E-02
+c28xc7q0,-1.22983E+02,4.91928E+01,2.08329E-02
+c2b837ws,-1.22983E+02,4.92827E+01,2.04087E-02

openquake/qa_tests_data/event_based/case_26/avg_gmf.csv

@@ -1,74 +1,74 @@
-#,,,,,,,,"generated_by='OpenQuake engine 3.25.0-gita29978772c', start_date='2025-11-22T03:05:39', checksum=2080634390"
-custom_site_id,lon,lat,gmv_PGA,gsd_PGA,gmv_HazusLiquefaction_LiqProb,gsd_HazusLiquefaction_LiqProb,gmv_HazusDeformation_PGDGeomMean,gsd_HazusDeformation_PGDGeomMean
-d29e420k,-7.65412E+01,3.34054E+00,4.83055E-02,1.56172E+00,1.00000E-10,1.00000E+00,1.00000E-10,1.00000E+00
-d29ed54w,-7.65493E+01,3.44536E+00,4.85393E-02,1.56263E+00,1.69097E-10,2.06673E+01,1.78320E-10,2.80712E+01
-d29e9kz9,-7.65752E+01,3.45413E+00,4.88886E-02,1.58067E+00,1.70409E-10,2.16091E+01,1.78961E-10,2.86579E+01
-d29e9u3z,-7.65612E+01,3.45243E+00,4.87189E-02,1.57185E+00,1.69830E-10,2.11889E+01,1.78676E-10,2.83962E+01
-d29egh4g,-7.65048E+01,3.49431E+00,4.93814E-02,1.62118E+00,1.03775E-09,6.36528E+02,1.15059E-09,8.41104E+02
-d29egk0f,-7.64967E+01,3.49402E+00,4.92866E-02,1.61670E+00,1.03153E-09,6.26511E+02,1.14684E-09,8.33714E+02
-d29eg73b,-7.64951E+01,3.48959E+00,4.92417E-02,1.61475E+00,1.02889E-09,6.22274E+02,1.14529E-09,8.30658E+02
-d29eebdt,-7.64723E+01,3.43144E+00,4.88809E-02,1.60057E+00,1.02327E-09,6.12667E+02,1.14153E-09,8.23049E+02
-d29e7vfs,-7.64721E+01,3.41615E+00,4.87969E-02,1.59667E+00,1.01741E-09,6.03464E+02,1.13824E-09,8.16683E+02
-d29e7zsx,-7.64695E+01,3.42622E+00,4.86186E-02,1.58530E+00,9.61765E-10,5.23583E+02,1.10626E-09,7.57533E+02
-d29e6yyt,-7.65107E+01,3.42188E+00,4.92211E-02,1.61647E+00,1.04623E-09,6.49869E+02,1.15503E-09,8.49672E+02
-d29e6gc6,-7.65180E+01,3.40485E+00,4.90029E-02,1.60505E+00,1.01685E-09,6.03430E+02,1.13818E-09,8.16887E+02
-d29e6stc,-7.65226E+01,3.40872E+00,4.90732E-02,1.60848E+00,1.02299E-09,6.13010E+02,1.14170E-09,8.23705E+02
-d29e6u6x,-7.65163E+01,3.40838E+00,4.90018E-02,1.60491E+00,1.01681E-09,6.03321E+02,1.13815E-09,8.16823E+02
-d29e719h,-7.65072E+01,3.39286E+00,4.88259E-02,1.59656E+00,9.98230E-10,5.75315E+02,1.12743E-09,7.96449E+02
-d29e6fcs,-7.65177E+01,3.39967E+00,4.89750E-02,1.60379E+00,1.01418E-09,5.99356E+02,1.13665E-09,8.13958E+02
-d29e6kmy,-7.65337E+01,3.40821E+00,4.91936E-02,1.61454E+00,1.03252E-09,6.28197E+02,1.14717E-09,8.34385E+02
-d29e7n5z,-7.65033E+01,3.41803E+00,4.91189E-02,1.61195E+00,1.04032E-09,6.40112E+02,1.15165E-09,8.42932E+02
-d29e7h5j,-7.65047E+01,3.40675E+00,4.90678E-02,1.61014E+00,1.03779E-09,6.36012E+02,1.15019E-09,8.40055E+02
-d29e3ve1,-7.65594E+01,3.41430E+00,4.89290E-02,1.59168E+00,1.84461E-09,1.39308E+03,2.07154E-09,1.85561E+03
-d29eg8ev,-7.64815E+01,3.47542E+00,4.90032E-02,1.60414E+00,1.01130E-09,5.94646E+02,1.13517E-09,8.11021E+02
-d29eernj,-7.64892E+01,3.46706E+00,4.90413E-02,1.60616E+00,1.01492E-09,6.00174E+02,1.13774E-09,8.15969E+02
-d29eer72,-7.64932E+01,3.46765E+00,4.90887E-02,1.60843E+00,1.01898E-09,6.06512E+02,1.14007E-09,8.20487E+02
-d29eg873,-7.64820E+01,3.47339E+00,4.89972E-02,1.60393E+00,1.01015E-09,5.92803E+02,1.13501E-09,8.10717E+02
-d29eew3s,-7.64846E+01,3.46277E+00,4.89689E-02,1.60263E+00,1.00847E-09,5.90244E+02,1.13401E-09,8.08813E+02
-d29eg4m8,-7.65012E+01,3.48406E+00,4.92785E-02,1.61670E+00,1.03140E-09,6.26237E+02,1.14722E-09,8.34465E+02
-d29e3bpt,-7.65531E+01,3.38468E+00,4.86952E-02,1.58034E+00,1.70441E-10,2.16323E+01,1.78967E-10,2.86639E+01
-d29e3bfj,-7.65610E+01,3.38885E+00,4.83745E-02,1.55526E+00,1.00000E-10,1.00000E+00,1.00000E-10,1.00000E+00
-d29e3bdn,-7.65610E+01,3.38763E+00,4.83675E-02,1.55493E+00,1.00000E-10,1.00000E+00,1.00000E-10,1.00000E+00
-d29e9cy2,-7.65549E+01,3.43747E+00,4.73400E-02,1.50839E+00,1.00000E-10,1.00000E+00,1.00000E-10,1.00000E+00
-d29e3yhg,-7.65570E+01,3.41742E+00,4.89170E-02,1.59099E+00,1.00000E-10,1.00000E+00,1.00000E-10,1.00000E+00
-d29e3zm3,-7.65564E+01,3.42391E+00,4.74849E-02,1.51955E+00,1.00000E-10,1.00000E+00,1.00000E-10,1.00000E+00
-d29e9mpc,-7.65749E+01,3.45547E+00,4.88925E-02,1.58086E+00,1.00000E-10,1.00000E+00,1.00000E-10,1.00000E+00
-d29efd46,-7.65274E+01,3.48306E+00,4.92970E-02,1.61623E+00,1.72145E-10,2.29097E+01,1.79950E-10,2.95837E+01
-d29ee9fs,-7.64832E+01,3.43805E+00,4.90362E-02,1.60740E+00,1.03284E-09,6.27927E+02,1.14744E-09,8.34612E+02
-d29e7rez,-7.64924E+01,3.42624E+00,4.90580E-02,1.60886E+00,1.03553E-09,6.32300E+02,1.14894E-09,8.37573E+02
-d29ee8j4,-7.64798E+01,3.42818E+00,4.89382E-02,1.60336E+00,1.02707E-09,6.18662E+02,1.14417E-09,8.28192E+02
-d29e7t2y,-7.64857E+01,3.41370E+00,4.89079E-02,1.60257E+00,1.02645E-09,6.17685E+02,1.14382E-09,8.27523E+02
-d29edx6y,-7.65268E+01,3.46867E+00,4.92079E-02,1.61178E+00,1.71972E-10,2.27773E+01,1.79821E-10,2.94614E+01
-d29e49h8,-7.65244E+01,3.34540E+00,4.85161E-02,1.57855E+00,1.69806E-10,2.11720E+01,1.78749E-10,2.84630E+01
-d29efdhf,-7.65242E+01,3.48303E+00,4.92606E-02,1.61437E+00,2.36961E-10,5.72255E+01,2.45698E-10,6.75933E+01
-d29e7yy8,-7.64666E+01,3.42101E+00,4.85678E-02,1.58237E+00,9.43945E-10,5.00456E+02,1.09608E-09,7.39682E+02
-d29ee8r6,-7.64766E+01,3.42953E+00,4.89134E-02,1.60219E+00,1.02512E-09,6.15549E+02,1.14307E-09,8.26055E+02
-d29eecvg,-7.64679E+01,3.43794E+00,4.88759E-02,1.60000E+00,1.02112E-09,6.09216E+02,1.14084E-09,8.21700E+02
-d29ee9sm,-7.64808E+01,3.43699E+00,4.87867E-02,1.59395E+00,9.90519E-10,5.63520E+02,1.12354E-09,7.89034E+02
-d29e7k1j,-7.64963E+01,3.40675E+00,4.89747E-02,1.60589E+00,1.03179E-09,6.26259E+02,1.14680E-09,8.33366E+02
-d29e7wbc,-7.64855E+01,3.42118E+00,4.89534E-02,1.60432E+00,1.02892E-09,6.21619E+02,1.14520E-09,8.30207E+02
-d29e7vs2,-7.64700E+01,3.41403E+00,4.87661E-02,1.59507E+00,1.01378E-09,5.97755E+02,1.13670E-09,8.13719E+02
-d29e7xbh,-7.64867E+01,3.42717E+00,4.90044E-02,1.60639E+00,1.03183E-09,6.26297E+02,1.14682E-09,8.33401E+02
-d29e7xjt,-7.64789E+01,3.42312E+00,4.88974E-02,1.60173E+00,1.02465E-09,6.14804E+02,1.14281E-09,8.25550E+02
-d29eedqs,-7.64776E+01,3.44086E+00,4.89939E-02,1.60538E+00,1.02964E-09,6.22773E+02,1.14561E-09,8.31018E+02
-d29edywg,-7.65105E+01,3.46404E+00,4.92596E-02,1.61660E+00,1.71821E-10,2.26623E+01,1.79746E-10,2.93910E+01
-d29e65b1,-7.65525E+01,3.40467E+00,4.93851E-02,1.62435E+00,1.71992E-10,2.27923E+01,1.79831E-10,2.94709E+01
-d29e6huj,-7.65472E+01,3.41086E+00,4.93574E-02,1.62278E+00,1.71923E-10,2.27398E+01,1.79797E-10,2.94387E+01
-d29edcfs,-7.65161E+01,3.43810E+00,4.89097E-02,1.59699E+00,1.71108E-10,2.21252E+01,1.79392E-10,2.90580E+01
-d29edewe,-7.65217E+01,3.44749E+00,4.90274E-02,1.60282E+00,1.71451E-10,2.23819E+01,1.79562E-10,2.92173E+01
-d29e6zjn,-7.65126E+01,3.42328E+00,4.90364E-02,1.60636E+00,1.71125E-10,2.21377E+01,1.79400E-10,2.90658E+01
-d29e3gpy,-7.65529E+01,3.40131E+00,4.91249E-02,1.60862E+00,1.71638E-10,2.25234E+01,1.79655E-10,2.93050E+01
-d29e640f,-7.65514E+01,3.39523E+00,4.87338E-02,1.58207E+00,1.70372E-10,2.15821E+01,1.79027E-10,2.87193E+01
-d29e6xff,-7.65269E+01,3.42677E+00,4.92074E-02,1.61483E+00,1.71545E-10,2.24529E+01,1.79609E-10,2.92613E+01
-d29e60dn,-7.65497E+01,3.38757E+00,4.86722E-02,1.57910E+00,1.70169E-10,2.14346E+01,1.78928E-10,2.86273E+01
-d29edtuy,-7.65242E+01,3.46045E+00,4.91313E-02,1.60795E+00,1.71761E-10,2.26164E+01,1.79716E-10,2.93622E+01
-d29edeqm,-7.65222E+01,3.44647E+00,4.90257E-02,1.60274E+00,1.71441E-10,2.23748E+01,1.79557E-10,2.92127E+01
-d29eep8b,-7.65077E+01,3.46901E+00,4.92596E-02,1.61640E+00,1.71838E-10,2.26752E+01,1.79755E-10,2.93985E+01
-d29e65nv,-7.65432E+01,3.40122E+00,4.90148E-02,1.60299E+00,1.71350E-10,2.23065E+01,1.79512E-10,2.91705E+01
-d29e6r2v,-7.65406E+01,3.42461E+00,4.91017E-02,1.60687E+00,1.71558E-10,2.24632E+01,1.79615E-10,2.92674E+01
-d29e6xk8,-7.65243E+01,3.42363E+00,4.91632E-02,1.61267E+00,1.71437E-10,2.23720E+01,1.79555E-10,2.92110E+01
-d29edfun,-7.65140E+01,3.44401E+00,4.89232E-02,1.59762E+00,1.71176E-10,2.21761E+01,1.79425E-10,2.90894E+01
-d29eep6b,-7.65049E+01,3.46764E+00,4.92202E-02,1.61461E+00,1.71751E-10,2.26092E+01,1.79711E-10,2.93578E+01
-d29ed6w8,-7.65328E+01,3.44157E+00,4.91100E-02,1.60704E+00,1.71612E-10,2.25039E+01,1.79642E-10,2.92926E+01
-d29ee5hy,-7.65019E+01,3.44536E+00,4.90560E-02,1.60709E+00,1.71287E-10,2.22589E+01,1.79480E-10,2.91408E+01
-d29edrz4,-7.65321E+01,3.47080E+00,4.85067E-02,1.56088E+00,1.00000E-10,1.00000E+00,1.00000E-10,1.00000E+00
+#,,,,,"generated_by='OpenQuake engine 3.27.0-gitb6f3282621', start_date='2026-07-21T07:21:33', checksum=3142565972"
+custom_site_id,lon,lat,PGA,HazusLiquefaction_LiqProb,HazusDeformation_PGDGeomMean
+d29e420k,-7.65412E+01,3.34054E+00,4.83055E-02,1.00000E-10,1.00000E-10
+d29ed54w,-7.65493E+01,3.44536E+00,4.85393E-02,1.69097E-10,1.78320E-10
+d29e9kz9,-7.65752E+01,3.45413E+00,4.88886E-02,1.70409E-10,1.78961E-10
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openquake/qa_tests_data/event_based/case_3/expected/avg_gmf.csv

@@ -1,3 +1,3 @@
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+#,,,"generated_by='OpenQuake engine 3.27.0-gitb6f3282621', start_date='2026-07-21T07:21:37', checksum=3545082028"
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