Scan all files for queries and reduce use of default endpoints

packages/apollo-cli/src/commands/codegen/generate.ts

@@ -186,7 +186,7 @@ export default class Generate extends Command {
     }
 
     const tasks: Listr = new Listr([
-      loadConfigStep(flags),
+      loadConfigStep(flags, false),
       {
         title: "Resolving GraphQL document sets and dependencies",
         task: async (ctx, task) => {

packages/apollo-cli/src/commands/schema/check.ts

@@ -60,7 +60,7 @@ export default class SchemaCheck extends Command {
     const { flags } = this.parse(SchemaCheck);
 
     const tasks = new Listr([
-      loadConfigStep(flags),
+      loadConfigStep(flags, true),
       {
         title: "Fetching local schema",
         task: async ctx => {

packages/apollo-cli/src/commands/schema/download.ts

@@ -52,7 +52,7 @@ export default class SchemaDownload extends Command {
     const { flags, args } = this.parse(SchemaDownload);
 
     const tasks: Listr = new Listr([
-      loadConfigStep(flags),
+      loadConfigStep(flags, false),
       {
         title: "Fetching current schema",
         task: async ctx => {
@@ -67,7 +67,7 @@ export default class SchemaDownload extends Command {
           ctx.schema = await loadSchema(
             Object.values(ctx.config.schemas)[0],
             ctx.config
-          ).catch(this.error);
+          );
         }
       },
       {

packages/apollo-cli/src/config.ts

@@ -89,13 +89,13 @@ function loadDocumentSet(obj: any): DocumentSet {
         ? [obj.includes as string]
         : obj.includes
           ? (obj.includes as string[])
-          : ["**/*.graphql"],
+          : ["**"],
     excludes:
       typeof obj.excludes === "string"
         ? [obj.excludes as string]
         : obj.excludes
           ? (obj.excludes as string[])
-          : ["node_modules"]
+          : ["node_modules/**"]
   };
 }
 
@@ -124,7 +124,11 @@ export function loadConfig(
       ? Array.isArray(obj.queries)
         ? (obj.queries as any[])
         : [obj.queries]
-      : []
+      : (
+          Object.keys(schemasObj).length == 1 ?
+            [ { schema: Object.keys(schemasObj)[0] } ] :
+            []
+        )
     ).map(d => loadDocumentSet(d)),
     engineEndpoint: obj.engineEndpoint
   };

packages/apollo-cli/src/load-config.ts

@@ -7,7 +7,7 @@ import { ListrTask } from "listr";
 
 export function loadConfigStep(
   flags: any,
-  defaultEndpoint: boolean = true
+  defaultEndpoint: boolean
 ): ListrTask {
   const header: any[] = Array.isArray(flags.header)
     ? flags.header

packages/apollo-codegen-core/src/loading.ts

@@ -84,6 +84,10 @@ export function loadQueryDocuments(
 ): DocumentNode[] {
   const sources = inputPaths
     .map(inputPath => {
+      if (fs.lstatSync(inputPath).isDirectory()) {
+        return null;
+      }
+
       const body = fs.readFileSync(inputPath, "utf8");
       if (!body) {
         return null;
@@ -99,11 +103,22 @@ export function loadQueryDocuments(
         return doc ? new Source(doc, inputPath) : null;
       }
 
-      return new Source(body, inputPath);
+      if (inputPath.endsWith(".graphql") || inputPath.endsWith(".gql")) {
+        return new Source(body, inputPath);
+      }
+
+      return null;
     })
-    .filter(source => source);
+    .filter(source => source)
+    .map(source => {
+      try {
+        return parse(source!);
+      } catch {
+        return null;
+      }
+    }).filter(source => source);
 
-  return (sources as Source[]).map(source => parse(source));
+  return sources as DocumentNode[];
 }
 
 export function loadAndMergeQueryDocuments(