Fixed incremental compilation, when removing all callables from file.

jps-plugin/testData/incremental/withJava/kotlinUsedInJava/onlyTopLevelFunctionInFileRemoved/Usage.java

@@ -0,0 +1,5 @@
+class Usage {
+    void usage() {
+        test.TestPackage.a();
+    }
+}

jps-plugin/testData/incremental/withJava/kotlinUsedInJava/onlyTopLevelFunctionInFileRemoved/a.kt

@@ -0,0 +1,4 @@
+package test
+
+fun a() {
+}

jps-plugin/testData/incremental/withJava/kotlinUsedInJava/onlyTopLevelFunctionInFileRemoved/b.kt

@@ -0,0 +1,4 @@
+package test
+
+fun b() {
+}

jps-plugin/testData/incremental/withJava/kotlinUsedInJava/onlyTopLevelFunctionInFileRemoved/b.kt.new

@@ -0,0 +1,2 @@
+package test
+

jps-plugin/testData/incremental/withJava/kotlinUsedInJava/onlyTopLevelFunctionInFileRemoved/build.log

@@ -0,0 +1,21 @@
+Cleaning output files:
+out/production/module/test/TestPackage$b$*.class
+out/production/module/test/TestPackage.class
+End of files
+Compiling files:
+src/b.kt
+End of files
+Compiling files:
+src/Usage.java
+End of files
+Cleaning output files:
+out/production/module/Usage.class
+out/production/module/test/TestPackage$a$*.class
+out/production/module/test/TestPackage.class
+End of files
+Compiling files:
+src/a.kt
+End of files
+Compiling files:
+src/Usage.java
+End of files