fix: corrected lint errors

Author: ymarcon

examples/datashield.py.ipynb

@@ -20,8 +20,8 @@
     "from datashield import DSSession, DSLoginBuilder, DSError\n",
     "import pandas as pd\n",
     "\n",
-    "url = 'https://opal-demo.obiba.org'\n",
-    "builder = DSLoginBuilder().add('server1', url, 'dsuser', 'P@ssw0rd').add('server2', url, 'dsuser', 'P@ssw0rd')\n",
+    "url = \"https://opal-demo.obiba.org\"\n",
+    "builder = DSLoginBuilder().add(\"server1\", url, \"dsuser\", \"P@ssw0rd\").add(\"server2\", url, \"dsuser\", \"P@ssw0rd\")\n",
     "logins = builder.build()\n",
     "\n",
     "session = DSSession(logins)\n",
@@ -143,7 +143,7 @@
    ],
    "source": [
     "pkgs = session.packages()\n",
-    "pd.DataFrame.from_records(pkgs['server1'])"
+    "pd.DataFrame.from_records(pkgs[\"server1\"])"
    ]
   },
   {
@@ -297,8 +297,8 @@
     }
    ],
    "source": [
-    "methods = session.methods(type='aggregate')\n",
-    "pd.DataFrame.from_records(methods['server1'])"
+    "methods = session.methods(type=\"aggregate\")\n",
+    "pd.DataFrame.from_records(methods[\"server1\"])"
    ]
   },
   {
@@ -386,7 +386,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "#session.resources()"
+    "# session.resources()"
    ]
   },
   {
@@ -415,7 +415,7 @@
     }
    ],
    "source": [
-    "session.assign_resource('client', resources = { 'server1': 'RSRC.CNSIM1', 'server2': 'RSRC.CNSIM1' })\n",
+    "session.assign_resource(\"client\", resources={\"server1\": \"RSRC.CNSIM1\", \"server2\": \"RSRC.CNSIM1\"})\n",
     "session.ls()"
    ]
   },
@@ -459,7 +459,7 @@
     }
    ],
    "source": [
-    "session.assign_expr('df', 'as.resource.data.frame(client, strict = TRUE)')\n",
+    "session.assign_expr(\"df\", \"as.resource.data.frame(client, strict = TRUE)\")\n",
     "session.ls()"
    ]
   },
@@ -555,7 +555,7 @@
     }
    ],
    "source": [
-    "session.aggregate('meanDS(df$LAB_GLUC_ADJUSTED)')"
+    "session.aggregate(\"meanDS(df$LAB_GLUC_ADJUSTED)\")"
    ]
   },
   {
@@ -576,7 +576,7 @@
     }
    ],
    "source": [
-    "session.assign_table('df2', tables = { 'server1': 'CNSIM.CNSIM1', 'server2': 'CNSIM.CNSIM2' })\n",
+    "session.assign_table(\"df2\", tables={\"server1\": \"CNSIM.CNSIM1\", \"server2\": \"CNSIM.CNSIM2\"})\n",
     "session.ls()"
    ]
   },
@@ -1038,8 +1038,10 @@
    ],
    "source": [
     "numints = 20\n",
-    "densityGrid = session.aggregate(f'densityGridDS(df2$LAB_TSC, df2$LAB_HDL, limits=FALSE, x.min=NULL, x.max=NULL, y.min=NULL, y.max=NULL, numints = {numints})')\n",
-    "densityGrid['server1']"
+    "densityGrid = session.aggregate(\n",
+    "    f\"densityGridDS(df2$LAB_TSC, df2$LAB_HDL, limits=FALSE, x.min=NULL, x.max=NULL, y.min=NULL, y.max=NULL, numints = {numints})\"\n",
+    ")\n",
+    "densityGrid[\"server1\"]"
    ]
   },
   {
@@ -1061,8 +1063,9 @@
    ],
    "source": [
     "import matplotlib.pyplot as plt\n",
-    "plt.imshow(densityGrid['server1'], aspect='auto')\n",
-    "plt.title( \"2-D Heat Map (server 1)\" )\n",
+    "\n",
+    "plt.imshow(densityGrid[\"server1\"], aspect=\"auto\")\n",
+    "plt.title(\"2-D Heat Map (server 1)\")\n",
     "plt.show()"
    ]
   },
@@ -1184,8 +1187,10 @@
     }
    ],
    "source": [
-    "data = session.aggregate('histogramDS2(df2$LAB_GLUC_ADJUSTED, num.breaks=20, min=0, max=20, method.indicator=1, k=3, noise=0.25)')\n",
-    "data['server1']"
+    "data = session.aggregate(\n",
+    "    \"histogramDS2(df2$LAB_GLUC_ADJUSTED, num.breaks=20, min=0, max=20, method.indicator=1, k=3, noise=0.25)\"\n",
+    ")\n",
+    "data[\"server1\"]"
    ]
   },
   {
@@ -1206,13 +1211,13 @@
     }
    ],
    "source": [
-    "breaks = data['server1']['value'][0]['value'][0]['value']\n",
-    "counts = data['server1']['value'][0]['value'][1]['value']\n",
+    "breaks = data[\"server1\"][\"value\"][0][\"value\"][0][\"value\"]\n",
+    "counts = data[\"server1\"][\"value\"][0][\"value\"][1][\"value\"]\n",
     "\n",
-    "plt.bar(breaks[1:], counts, width=1, edgecolor='black', linewidth=0.5, color='lightgrey')\n",
-    "plt.xlabel('LAB_GLUC_ADJUSTED')\n",
-    "plt.ylabel('Frequency')\n",
-    "plt.title('Histogram (server 1)')\n",
+    "plt.bar(breaks[1:], counts, width=1, edgecolor=\"black\", linewidth=0.5, color=\"lightgrey\")\n",
+    "plt.xlabel(\"LAB_GLUC_ADJUSTED\")\n",
+    "plt.ylabel(\"Frequency\")\n",
+    "plt.title(\"Histogram (server 1)\")\n",
     "plt.show()"
    ]
   },
@@ -1236,11 +1241,11 @@
    ],
    "source": [
     "try:\n",
-    "  session.aggregate('heatmapPlotDS(df2$LAB_TSC, df2$LAB_HDL, 3, 0.25, \"xxx\")')\n",
-    "except DSError as e:\n",
-    "  print(session.get_errors()['server1'])\n",
-    "  print(session.get_errors()['server1'].is_client_error())\n",
-    "  print(session.get_errors()['server1'].is_server_error())"
+    "    session.aggregate('heatmapPlotDS(df2$LAB_TSC, df2$LAB_HDL, 3, 0.25, \"xxx\")')\n",
+    "except DSError:\n",
+    "    print(session.get_errors()[\"server1\"])\n",
+    "    print(session.get_errors()[\"server1\"].is_client_error())\n",
+    "    print(session.get_errors()[\"server1\"].is_server_error())"
    ]
   },
   {