Format code with Blackdeepsource-transform-b65b5545

1 files changed, 86 insertions, 46 deletions

diff --git a/plip/basic/remote.py b/plip/basic/remote.py
index 0c67f6f..18de4b7 100644
--- a/plip/basic/remote.py
+++ b/plip/basic/remote.py
@@ -1,14 +1,23 @@
 from collections import namedtuple
 
-hbonds_info = namedtuple('hbonds_info', 'ldon_id lig_don_id prot_acc_id pdon_id prot_don_id lig_acc_id')
-hydrophobic_info = namedtuple('hydrophobic_info', 'bs_ids lig_ids pairs_ids')
-halogen_info = namedtuple('halogen_info', 'don_id acc_id')
-pistack_info = namedtuple('pistack_info', 'proteinring_atoms, proteinring_center ligandring_atoms '
-                                          'ligandring_center type')
-pication_info = namedtuple('pication_info', 'ring_center charge_center ring_atoms charge_atoms, protcharged')
-sbridge_info = namedtuple('sbridge_info', 'positive_atoms negative_atoms positive_center negative_center protispos')
-wbridge_info = namedtuple('wbridge_info', 'don_id acc_id water_id protisdon')
-metal_info = namedtuple('metal_info', 'metal_id, target_id location')
+hbonds_info = namedtuple(
+    "hbonds_info", "ldon_id lig_don_id prot_acc_id pdon_id prot_don_id lig_acc_id"
+)
+hydrophobic_info = namedtuple("hydrophobic_info", "bs_ids lig_ids pairs_ids")
+halogen_info = namedtuple("halogen_info", "don_id acc_id")
+pistack_info = namedtuple(
+    "pistack_info",
+    "proteinring_atoms, proteinring_center ligandring_atoms " "ligandring_center type",
+)
+pication_info = namedtuple(
+    "pication_info", "ring_center charge_center ring_atoms charge_atoms, protcharged"
+)
+sbridge_info = namedtuple(
+    "sbridge_info",
+    "positive_atoms negative_atoms positive_center negative_center protispos",
+)
+wbridge_info = namedtuple("wbridge_info", "don_id acc_id water_id protisdon")
+metal_info = namedtuple("metal_info", "metal_id, target_id location")
 
 
 class VisualizerData:
@@ -21,7 +30,7 @@ class VisualizerData:
 
         # General Information
         self.lig_members = sorted(pli.ligand.members)
-        self.sourcefile = pcomp.sourcefiles['pdbcomplex']
+        self.sourcefile = pcomp.sourcefiles["pdbcomplex"]
         self.corrected_pdb = pcomp.corrected_pdb
         self.pdbid = mol.pymol_name
         self.hetid = ligand.hetid
@@ -39,57 +48,88 @@ class VisualizerData:
 
         # Hydrophobic Contacts
         # Contains IDs of contributing binding site, ligand atoms and the pairings
-        hydroph_pairs_id = [(h.bsatom_orig_idx, h.ligatom_orig_idx) for h in pli.hydrophobic_contacts]
-        self.hydrophobic_contacts = hydrophobic_info(bs_ids=[hp[0] for hp in hydroph_pairs_id],
-                                                     lig_ids=[hp[1] for hp in hydroph_pairs_id],
-                                                     pairs_ids=hydroph_pairs_id)
+        hydroph_pairs_id = [
+            (h.bsatom_orig_idx, h.ligatom_orig_idx) for h in pli.hydrophobic_contacts
+        ]
+        self.hydrophobic_contacts = hydrophobic_info(
+            bs_ids=[hp[0] for hp in hydroph_pairs_id],
+            lig_ids=[hp[1] for hp in hydroph_pairs_id],
+            pairs_ids=hydroph_pairs_id,
+        )
 
         # Hydrogen Bonds
         # #@todo Don't use indices, simplify this code here
         hbonds_ldon, hbonds_pdon = pli.hbonds_ldon, pli.hbonds_pdon
         hbonds_ldon_id = [(hb.a_orig_idx, hb.d_orig_idx) for hb in hbonds_ldon]
         hbonds_pdon_id = [(hb.a_orig_idx, hb.d_orig_idx) for hb in hbonds_pdon]
-        self.hbonds = hbonds_info(ldon_id=[(hb.a_orig_idx, hb.d_orig_idx) for hb in hbonds_ldon],
-                                  lig_don_id=[hb[1] for hb in hbonds_ldon_id],
-                                  prot_acc_id=[hb[0] for hb in hbonds_ldon_id],
-                                  pdon_id=[(hb.a_orig_idx, hb.d_orig_idx) for hb in hbonds_pdon],
-                                  prot_don_id=[hb[1] for hb in hbonds_pdon_id],
-                                  lig_acc_id=[hb[0] for hb in hbonds_pdon_id])
+        self.hbonds = hbonds_info(
+            ldon_id=[(hb.a_orig_idx, hb.d_orig_idx) for hb in hbonds_ldon],
+            lig_don_id=[hb[1] for hb in hbonds_ldon_id],
+            prot_acc_id=[hb[0] for hb in hbonds_ldon_id],
+            pdon_id=[(hb.a_orig_idx, hb.d_orig_idx) for hb in hbonds_pdon],
+            prot_don_id=[hb[1] for hb in hbonds_pdon_id],
+            lig_acc_id=[hb[0] for hb in hbonds_pdon_id],
+        )
 
         # Halogen Bonds
-        self.halogen_bonds = [halogen_info(don_id=h.don_orig_idx, acc_id=h.acc_orig_idx)
-                              for h in pli.halogen_bonds]
+        self.halogen_bonds = [
+            halogen_info(don_id=h.don_orig_idx, acc_id=h.acc_orig_idx)
+            for h in pli.halogen_bonds
+        ]
 
         # Pistacking
-        self.pistacking = [pistack_info(proteinring_atoms=pistack.proteinring.atoms_orig_idx,
-                                        proteinring_center=pistack.proteinring.center,
-                                        ligandring_atoms=pistack.ligandring.atoms_orig_idx,
-                                        ligandring_center=pistack.ligandring.center,
-                                        type=pistack.type) for pistack in pli.pistacking]
+        self.pistacking = [
+            pistack_info(
+                proteinring_atoms=pistack.proteinring.atoms_orig_idx,
+                proteinring_center=pistack.proteinring.center,
+                ligandring_atoms=pistack.ligandring.atoms_orig_idx,
+                ligandring_center=pistack.ligandring.center,
+                type=pistack.type,
+            )
+            for pistack in pli.pistacking
+        ]
 
         # Pi-cation interactions
-        self.pication = [pication_info(ring_center=picat.ring.center,
-                                       charge_center=picat.charge.center,
-                                       ring_atoms=picat.ring.atoms_orig_idx,
-                                       charge_atoms=picat.charge.atoms_orig_idx,
-                                       protcharged=picat.protcharged)
-                         for picat in pli.pication_paro + pli.pication_laro]
+        self.pication = [
+            pication_info(
+                ring_center=picat.ring.center,
+                charge_center=picat.charge.center,
+                ring_atoms=picat.ring.atoms_orig_idx,
+                charge_atoms=picat.charge.atoms_orig_idx,
+                protcharged=picat.protcharged,
+            )
+            for picat in pli.pication_paro + pli.pication_laro
+        ]
 
         # Salt Bridges
-        self.saltbridges = [sbridge_info(positive_atoms=sbridge.positive.atoms_orig_idx,
-                                         negative_atoms=sbridge.negative.atoms_orig_idx,
-                                         positive_center=sbridge.positive.center,
-                                         negative_center=sbridge.negative.center,
-                                         protispos=sbridge.protispos)
-                            for sbridge in pli.saltbridge_lneg + pli.saltbridge_pneg]
+        self.saltbridges = [
+            sbridge_info(
+                positive_atoms=sbridge.positive.atoms_orig_idx,
+                negative_atoms=sbridge.negative.atoms_orig_idx,
+                positive_center=sbridge.positive.center,
+                negative_center=sbridge.negative.center,
+                protispos=sbridge.protispos,
+            )
+            for sbridge in pli.saltbridge_lneg + pli.saltbridge_pneg
+        ]
 
         # Water Bridgese('wbridge_info', 'don_id acc_id water_id protisdon')
-        self.waterbridges = [wbridge_info(don_id=wbridge.d_orig_idx,
-                                          acc_id=wbridge.a_orig_idx,
-                                          water_id=wbridge.water_orig_idx,
-                                          protisdon=wbridge.protisdon) for wbridge in pli.water_bridges]
+        self.waterbridges = [
+            wbridge_info(
+                don_id=wbridge.d_orig_idx,
+                acc_id=wbridge.a_orig_idx,
+                water_id=wbridge.water_orig_idx,
+                protisdon=wbridge.protisdon,
+            )
+            for wbridge in pli.water_bridges
+        ]
 
         # Metal Complexes
-        self.metal_complexes = [metal_info(metal_id=metalc.metal_orig_idx,
-                                           target_id=metalc.target_orig_idx,
-                                           location=metalc.location) for metalc in pli.metal_complexes]
+        self.metal_complexes = [
+            metal_info(
+                metal_id=metalc.metal_orig_idx,
+                target_id=metalc.target_orig_idx,
+                location=metalc.location,
+            )
+            for metalc in pli.metal_complexes
+        ]