Parser fixes issue #701

cp2k @ f3ce55d6

-Subproject commit 566b1dc9005f261d7b9338bebd7ba6f03f77064f
+Subproject commit f3ce55d656b74d1cdeb86681dd3f104b493a4a18

crystal @ ba651972

-Subproject commit 2ded98fc638765a8ae6b986056d9782b37ab9fac
+Subproject commit ba651972b85c14f5c35317400c5f41511fe91611

exciting @ 92b5304f

-Subproject commit 650f790435cea5a8e4936b4c5119831db9bdb1bd
+Subproject commit 92b5304f44de8853e6bc56f22f79fefd6dccbdef

fhi-aims @ 2e725461

-Subproject commit a881fb41c5402f1eb08ffd918c5dc77dbc16fc33
+Subproject commit 2e725461e9463401c75643d603045ffafe3cab4c

gaussian @ 4e1e2cc7

-Subproject commit c33fb8ea93184752c580d2f497a2396399f45fe3
+Subproject commit 4e1e2cc790713269232f82b23534be5e1ece6e54

gromacs @ 9a4ba02a

-Subproject commit 2401385ace6243b85c2fb7afd84212662c46958a
+Subproject commit 9a4ba02a02016f630640a68ad533f847a9343d58

lammps @ 918f29ba

-Subproject commit 4e33076b7b459913ea099ddd5e32aac35600fd98
+Subproject commit 918f29baeceaa0c17b2c5cffd3ef04951c9afdd1

octopus @ c81f95fc

-Subproject commit c2318c4b2306a3522ebf36f94e3255b240de3e76
+Subproject commit c81f95fc41677153e83534bde23f97d9ada0b477

openkim @ b2cf175c

-Subproject commit 59ab8301128b64e74b4bbfe92035a87c97b5adac
+Subproject commit b2cf175c432e2661dea9e5a7788d6439b36b1a9e

vasp @ 40425ea6

-Subproject commit f51c57a0258510645c019b0f935f3e0f01b79282
+Subproject commit 40425ea66319a3390722f63a420e82b2d6277881

wien2k @ 4ac3b4f9

-Subproject commit c8e4fa0a2fab86d2cefc481fcd00969d81520058
+Subproject commit 4ac3b4f9fe998d36c037ce90fd907ffe5409e027

nomad/normalizing/results.py

@@ -568,6 +568,10 @@ class ResultsNormalizer(Normalizer):
         return conv_atoms, prim_atoms, wyckoff_sets, spg_number
 
     def structures_2d(self, original_atoms):
+        conv_atoms = None
+        prim_atoms = None
+        wyckoff_sets = None
+        spg_number = None
         try:
             # Get dimension of system by also taking into account the covalent radii
             dimensions = matid.geometry.get_dimensions(original_atoms, [True, True, True])
@@ -580,7 +584,8 @@ class ResultsNormalizer(Normalizer):
             # unsufficient (the structure is "wavy" making also the gap highly
             # nonlinear).
             if sum(periodicity) != 2:
-                raise ValueError("could not detect the periodic dimensions in a 2D system")
+                self.logger.error("could not detect the periodic dimensions in a 2D system")
+                return conv_atoms, prim_atoms, wyckoff_sets, spg_number
 
             # Center the system in the non-periodic direction, also taking
             # periodicity into account. The get_center_of_mass()-function in MatID
@@ -655,7 +660,8 @@ class ResultsNormalizer(Normalizer):
             # If one axis is not periodic, return. This only happens if the vacuum
             # gap is not aligned with a cell vector.
             if sum(periodicity) != 1:
-                raise ValueError("could not detect the periodic dimensions in a 1D system")
+                self.logger.error("could not detect the periodic dimensions in a 1D system")
+                return conv_atoms, prim_atoms
 
             # Translate to center of mass
             conv_atoms = prim_atoms.copy()

nomad/normalizing/workflow.py

@@ -420,7 +420,11 @@ class WorkflowNormalizer(Normalizer):
     def _resolve_workflow_type(self, run):
         # resolve it from parser
         workflow_type = None
-        program_name = run.program.name
+        try:
+            program_name = run.program.name
+        except Exception:
+            return
+
         if program_name:
             program_name = program_name.lower()